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    <title>CDSB</title>
    <link>http://comunidadbioinfo.github.io/</link>
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    <description>CDSB</description>
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      <title>CDSB</title>
      <link>http://comunidadbioinfo.github.io/</link>
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    <item>
      <title>CDSB Workshop 2024: Developing R/Bioconductor packages</title>
      <link>http://comunidadbioinfo.github.io/post/cdsb-2024-workshop/</link>
      <pubDate>Thu, 08 Aug 2024 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsb-2024-workshop/</guid>
      <description>&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;TIB2024&lt;/th&gt;
&lt;th&gt;RMB&lt;/th&gt;
&lt;th&gt;NNB&lt;/th&gt;
&lt;th&gt;CCG-UNAM&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2022/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://congresos.nnb.unam.mx/tib2019/wp-content/uploads/sites/4/2019/03/NNB-TIB-Logo.png&#34; width=&#34;50px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h4 id=&#34;community-of-software-developers-in-bioinformatics-cdsb&#34;&gt;Community of Software Developers in Bioinformatics (CDSB)&lt;/h4&gt;
&lt;p&gt;We are delighted to announce that 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;, along with the 
&lt;a href=&#34;https://twitter.com/RBioinformatica&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network&lt;/a&gt; (RMB in Spanish) and the 
&lt;a href=&#34;https://twitter.com/nnb_unam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics at UNAM&lt;/a&gt; (NNB-CCG), is organizing the summer workshop 
&lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2024&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Developing R/Bioconductor packages&lt;/a&gt;  as part of the 
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2024/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Bioinformatics Meeting Mexico 2024&lt;/a&gt;.&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Level: Intermediate-Advanced.&lt;/li&gt;
&lt;li&gt;Language: Spanish.&lt;/li&gt;
&lt;li&gt;Where: This workshop will be held online on Zoom.&lt;/li&gt;
&lt;li&gt;When: October 28-31 2024, 9:00am - 5:00pm (Mexico City timezone).&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2024/registro/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Registration&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Twitter: @CDSBMexico&lt;/li&gt;
&lt;li&gt;Facebook: @CDSBMexico&lt;/li&gt;
&lt;li&gt;GitHub: &lt;a href=&#34;https://github.com/ComunidadBioInfo/cdsb2024&#34;&gt;https://github.com/ComunidadBioInfo/cdsb2024&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Workshop webpage: &lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2024&#34;&gt;https://comunidadbioinfo.github.io/cdsb2024&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;http://bit.ly/calendarcdsb2024&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Calendar&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;what-are-you-going-to-learn&#34;&gt;What are you going to learn?&lt;/h2&gt;
&lt;p&gt;You will learn the crucial steps to develop an R package and some good practices for code generation. With the integration of these tools, you will have the opportunity to create your first package and contribute to the developers community.&lt;/p&gt;
&lt;h2 id=&#34;who-is-it-for&#34;&gt;Who is it for?&lt;/h2&gt;
&lt;p&gt;This course is aimed at people who want to learn how to develop packages using R/Bioconductor tools.&lt;/p&gt;
&lt;h2 id=&#34;pre-requirements&#34;&gt;Pre-requirements&lt;/h2&gt;
&lt;p&gt;This workshop is &lt;strong&gt;Advanced&lt;/strong&gt;, so you’ll need some &lt;strong&gt;background knowledge&lt;/strong&gt;:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Basic knowledge of RStudio:
&lt;ul&gt;
&lt;li&gt;Rscripts creation, RStudio console management, display space management.&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;Intermediate knowledge of R:
&lt;ul&gt;
&lt;li&gt;Managing variables, reading files, creating and managing data frames and lists.&lt;/li&gt;
&lt;li&gt;Generation of graphs.&lt;/li&gt;
&lt;li&gt;How to install packages from CRAN and Bioconductor.&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Technical requirements&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Computer with at least 4Gb of memory.&lt;/li&gt;
&lt;li&gt;Access to a Linux terminal.&lt;/li&gt;
&lt;li&gt;Have R and RStudio installed in their latest version.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;instructors&#34;&gt;Instructors&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Instructors&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/josschavezf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Joselyn Cristina Chávez Fuentes&lt;/a&gt;: Postdoctoral Fellow at Icahn School of Medicine at Mount Sinai.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/mirnavrl/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Mirna Vázquez Rosas Landa&lt;/a&gt;: Associate Professor at Instituto de Ciencias de Mar y Limnología de la UNAM.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Alejandra Medina Rivera&lt;/a&gt;: Associate Professor at Laboratorio Internacional de Investigación de Medicina Genómica, UNAM.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/erickcufe/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;M.C. Erick Cuevas Fernández&lt;/a&gt;: PhD Student at Universidad Nacional Autónoma de México.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;program&#34;&gt;Program&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Day 1:&lt;/strong&gt; Project-oriented workflows:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Introduction to project-oriented workflows.&lt;/li&gt;
&lt;li&gt;Safe paths.&lt;/li&gt;
&lt;li&gt;Good practices for maintaining your workspace.&lt;/li&gt;
&lt;li&gt;Modifying the R startup files.&lt;/li&gt;
&lt;li&gt;New features of RStudio, Quarto.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 2:&lt;/strong&gt;  Creating R packages Part I&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Version control with GitHub and RStudio.&lt;/li&gt;
&lt;li&gt;Troubleshooting with Rstudio package versions.&lt;/li&gt;
&lt;li&gt;Infrastructure of an R/Bioconductor package.&lt;/li&gt;
&lt;li&gt;Talk: Converting your analysis workflow into an R/Bioconductor package.&lt;/li&gt;
&lt;li&gt;Documentation of functions.&lt;/li&gt;
&lt;li&gt;Social session: Getting to know the community.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 3:&lt;/strong&gt; Writting R/Bioconductor packages Part II&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Design of tests.&lt;/li&gt;
&lt;li&gt;Vignettes.&lt;/li&gt;
&lt;li&gt;Compilation and installation of packages.&lt;/li&gt;
&lt;li&gt;Collaborative projects Part I.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 4:&lt;/strong&gt; Collaborative projects&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Collaborative projects Part II.&lt;/li&gt;
&lt;li&gt;Projects presentation.&lt;/li&gt;
&lt;li&gt;Closure.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Looking forward to see you!&lt;/p&gt;
&lt;h2 id=&#34;organizers&#34;&gt;Organizers&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://comunidadbioinfo.github.io/images/logo_hu887f29129fe527571c16cff89573bbf0_57814_0x70_resize_lanczos_2.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;h2 id=&#34;with-the-support-of&#34;&gt;With the support of:&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>CDSB Workshop 2023: Writting R/Bioconductor packages for scRNAseq analysis.</title>
      <link>http://comunidadbioinfo.github.io/post/cdsb-2023-workshop/</link>
      <pubDate>Mon, 29 May 2023 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsb-2023-workshop/</guid>
      <description>&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;TIB2023&lt;/th&gt;
&lt;th&gt;RMB&lt;/th&gt;
&lt;th&gt;NNB&lt;/th&gt;
&lt;th&gt;CCG-UNAM&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2022/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://congresos.nnb.unam.mx/tib2019/wp-content/uploads/sites/4/2019/03/NNB-TIB-Logo.png&#34; width=&#34;50px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h4 id=&#34;community-of-software-developers-in-bioinformatics-cdsb&#34;&gt;Community of Software Developers in Bioinformatics (CDSB)&lt;/h4&gt;
&lt;p&gt;We are delighted to announce that 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;, along with the 
&lt;a href=&#34;https://twitter.com/RBioinformatica&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network&lt;/a&gt; (RMB in Spanish) and the 
&lt;a href=&#34;https://twitter.com/nnb_unam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics at UNAM&lt;/a&gt; (NNB-CCG), is organizing the summer workshop 
&lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2023&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Writting R/Bioconductor packages for scRNAseq analysis&lt;/a&gt;  as part of the 
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2023/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Bioinformatics Meeting Mexico 2023&lt;/a&gt;.&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Level: Intermediate-Advanced.&lt;/li&gt;
&lt;li&gt;Language: Spanish.&lt;/li&gt;
&lt;li&gt;Where: This workshop will be held online on Zoom.&lt;/li&gt;
&lt;li&gt;When: 07-11 August 2023, 9:00am - 5:00pm (Mexico City timezone).&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2023/registro/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Registration&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Twitter: @CDSBMexico&lt;/li&gt;
&lt;li&gt;Facebook: @CDSBMexico&lt;/li&gt;
&lt;li&gt;GitHub: &lt;a href=&#34;https://github.com/ComunidadBioInfo/cdsb2023&#34;&gt;https://github.com/ComunidadBioInfo/cdsb2023&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Workshop webpage: &lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2023&#34;&gt;https://comunidadbioinfo.github.io/cdsb2023&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;http://bit.ly/calendarcdsb2023&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Calendar&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;what-are-you-going-to-learn&#34;&gt;What are you going to learn?&lt;/h2&gt;
&lt;p&gt;In recent years, the generation of scRNAseq data has become very important in biomedical research; however, the tools needed for its analysis are still under development.&lt;/p&gt;
&lt;p&gt;In this workshop, we will review the existing statistical tools to analyze scRNAseq data using Bioconductor, how to document your analysis and check some tools for interpreting results.&lt;/p&gt;
&lt;p&gt;At the same time, you will learn the crucial steps to develop an R package and some good practices for code generation. With the integration of these tools, you will have the opportunity to create your first package and contribute to the developers community.&lt;/p&gt;
&lt;h2 id=&#34;who-is-it-for&#34;&gt;Who is it for?&lt;/h2&gt;
&lt;p&gt;This course is aimed at people who want to learn how to develop packets to analyze scRNAseq data using R/Bioconductor tools.&lt;/p&gt;
&lt;h2 id=&#34;pre-requirements&#34;&gt;Pre-requirements&lt;/h2&gt;
&lt;p&gt;This workshop is &lt;strong&gt;Advanced&lt;/strong&gt;, so you’ll need some &lt;strong&gt;background knowledge&lt;/strong&gt;:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Basic knowledge of RNAseq.&lt;/li&gt;
&lt;li&gt;Basic knowledge of RStudio:
&lt;ul&gt;
&lt;li&gt;Rscripts creation, RStudio console management, display space management.&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;Intermediate knowledge of R:
&lt;ul&gt;
&lt;li&gt;Managing variables, reading files, creating and managing data frames and lists.&lt;/li&gt;
&lt;li&gt;Generation of graphs.&lt;/li&gt;
&lt;li&gt;How to install packages from CRAN and Bioconductor.&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Technical requirements&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Computer with at least 8Gb of memory.&lt;/li&gt;
&lt;li&gt;Access to a Linux terminal.&lt;/li&gt;
&lt;li&gt;Have R and RStudio installed in their latest version.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;instructors&#34;&gt;Instructors&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Instructors&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/josschavezf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Joselyn Cristina Chávez Fuentes&lt;/a&gt;: Postdoctoral Fellow at Icahn School of Medicine at Mount Sinai.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/yalbibalderas/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Yalbi Balderas Martínez&lt;/a&gt;:  Investigator at Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dr. Leonardo Collado Torres&lt;/a&gt;: Investigator at Lieber Institute for Brain Development.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/erickcufe/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;M.C. Erick Cuevas Fernández&lt;/a&gt;: PhD Student at Universidad Nacional Autónoma de México.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/mirnavrl/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Mirna Vázquez Rosas Landa&lt;/a&gt;: Associate Professor at Instituto de Ciencias de Mar y Limnología de la UNAM.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Alejandra Medina Rivera&lt;/a&gt;: Associate Professor at Laboratorio Internacional de Investigación de Medicina Genómica, UNAM.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Invited speakers&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Dra. Evelia Lorena Coss Navarrete&lt;/li&gt;
&lt;li&gt;M.C. José Antonio Ovando Ricárdez&lt;/li&gt;
&lt;li&gt;M.C. Andrés Arredondo Cruz&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;TAs&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;M. C. Diego Ramírez&lt;/li&gt;
&lt;li&gt;M. C. Luis Alberto Meza&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;program&#34;&gt;Program&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Day 1:&lt;/strong&gt; scRNAseq analysis workflow Part I&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Presentation of the CDSB.&lt;/li&gt;
&lt;li&gt;Structure and importing of data.&lt;/li&gt;
&lt;li&gt;Quality control.&lt;/li&gt;
&lt;li&gt;Normalization.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 2:&lt;/strong&gt;  scRNAseq analysis workflow Part II&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Selection of highly variable genes.&lt;/li&gt;
&lt;li&gt;Dimension reduction.&lt;/li&gt;
&lt;li&gt;Clustering.&lt;/li&gt;
&lt;li&gt;Marker genes.&lt;/li&gt;
&lt;li&gt;Annotation of cellular types.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 3:&lt;/strong&gt; Writting R/Bioconductor packages Part I&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;New features of RStudio, Quarto.&lt;/li&gt;
&lt;li&gt;Version control with GitHub and RStudio.&lt;/li&gt;
&lt;li&gt;Troubleshooting with Rstudio package versions.&lt;/li&gt;
&lt;li&gt;Infrastructure of an R/Bioconductor package.&lt;/li&gt;
&lt;li&gt;Talk: Converting your analysis workflow into an R/Bioconductor package.&lt;/li&gt;
&lt;li&gt;Documentation of functions.&lt;/li&gt;
&lt;li&gt;Social session: Getting to know the community.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 4:&lt;/strong&gt; Writting R/Bioconductor packages Part II&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Design of tests.&lt;/li&gt;
&lt;li&gt;Vignettes.&lt;/li&gt;
&lt;li&gt;Compilation and installation of packages.&lt;/li&gt;
&lt;li&gt;Collaborative projects Part I.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 5:&lt;/strong&gt; Collaborative projects&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Collaborative projects Part II.&lt;/li&gt;
&lt;li&gt;Projects presentation.&lt;/li&gt;
&lt;li&gt;Closure.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Looking forward to see you!&lt;/p&gt;
&lt;h2 id=&#34;organizers&#34;&gt;Organizers&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://comunidadbioinfo.github.io/images/logo_hu887f29129fe527571c16cff89573bbf0_57814_0x70_resize_lanczos_2.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;h2 id=&#34;with-the-support-of&#34;&gt;With the support of:&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>CDSB Workshop 2022: Advanced analysis of metagenomes. Creating workflows with R/Bioconductor.</title>
      <link>http://comunidadbioinfo.github.io/post/cdsb-2022-workshops/</link>
      <pubDate>Wed, 11 May 2022 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsb-2022-workshops/</guid>
      <description>&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;TIB2022&lt;/th&gt;
&lt;th&gt;RMB&lt;/th&gt;
&lt;th&gt;NNB&lt;/th&gt;
&lt;th&gt;CCG-UNAM&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2022/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://congresos.nnb.unam.mx/tib2019/wp-content/uploads/sites/4/2019/03/NNB-TIB-Logo.png&#34; width=&#34;50px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h4 id=&#34;community-of-software-developers-in-bioinformatics-cdsb&#34;&gt;Community of Software Developers in Bioinformatics (CDSB)&lt;/h4&gt;
&lt;p&gt;We are delighted to announce that 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;, along with the 
&lt;a href=&#34;https://twitter.com/RBioinformatica&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network&lt;/a&gt; (RMB in Spanish) and the 
&lt;a href=&#34;https://twitter.com/nnb_unam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics at UNAM&lt;/a&gt; (NNB-CCG), is organizing the summer workshop 
&lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2022&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Advanced analysis of metagenomes. Creating workflows with R/Bioconductor&lt;/a&gt; as part of the 
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2022/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Bioinformatics Meeting Mexico 2022&lt;/a&gt;.&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Level: Advanced.&lt;/li&gt;
&lt;li&gt;Language: Spanish.&lt;/li&gt;
&lt;li&gt;Where: This workshop will be held online on Zoom.&lt;/li&gt;
&lt;li&gt;When: 01-05 August 2022, 9:00am - 5:00pm (Mexico City timezone).&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://www.nnb.unam.mx/EBM2022/registro/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Registration&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Twitter: @CDSBMexico&lt;/li&gt;
&lt;li&gt;Facebook: @CDSBMexico&lt;/li&gt;
&lt;li&gt;GitHub: &lt;a href=&#34;https://github.com/ComunidadBioInfo/cdsb2022&#34;&gt;https://github.com/ComunidadBioInfo/cdsb2022&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Workshop webpage: &lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2022&#34;&gt;https://comunidadbioinfo.github.io/cdsb2022&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;http://bit.ly/calendarcdsb2022&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Calendar&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;what-are-you-going-to-learn&#34;&gt;What are you going to learn?&lt;/h2&gt;
&lt;p&gt;In recent years metagenomics has gained importance for discovering new groups of microorganisms and metabolic pathways. In this workshop, we will review the latest methods for analyzing metagenomic data, using free software tools and specialized R packages freely available via Bioconductor.&lt;/p&gt;
&lt;p&gt;During this workshop, you will learn to reconstruct genomes from metagenomes using different free software tools. We will review different binning and metabolic prediction strategies, and we will identify areas of opportunity for software development in metagenomics; you will also learn how to document your code using RMarkdown.&lt;/p&gt;
&lt;h2 id=&#34;who-is-it-for&#34;&gt;Who is it for?&lt;/h2&gt;
&lt;p&gt;This course is designed for people who want to learn how to reconstruct genomes from metagenomes, make metabolic predictions, and contribute to the development of bioinformatics tools in this area. Participants who wish to register for the workshop must know Linux, R, NGS sequence quality analysis, and metagenomic assembly.&lt;/p&gt;
&lt;h2 id=&#34;pre-requirements&#34;&gt;Pre-requirements&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;Basic knowledge of metagenome sequencing and assembly
&lt;ul&gt;
&lt;li&gt;Know what reads are.&lt;/li&gt;
&lt;li&gt;Quality control of NGS sequences.&lt;/li&gt;
&lt;li&gt;Assembly of metagenomes.&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;Basic knowledge of RStudio.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Technical requirements&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Computer with at least 8Gb of memory.&lt;/li&gt;
&lt;li&gt;Access to a Linux terminal.&lt;/li&gt;
&lt;li&gt;Have R and RStudio installed in their latest version.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;instructors&#34;&gt;Instructors&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Instructors&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/mirnavrl/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Mirna Vázquez Rosas Landa&lt;/a&gt;: Estancia Postdoctoral en la Universidad de Texas en Austin.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/josschavezf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Joselyn Chávez Fuentes&lt;/a&gt;: Estancia Postdoctoral en Icahn School of Medicine at Mount Sinai.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/erickcufe/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;M.C. Erick Cuevas Fernández&lt;/a&gt;: Estudiante de Doctorado en la Universidad Nacional Autónoma de México.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Alejandra Medina Rivera&lt;/a&gt;: Investigadora Asociada en el Laboratorio Internacional de Investigación de Medicina Genómica, UNAM.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/yalbibalderas/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Yalbi Balderas Martínez&lt;/a&gt;:  Investigadora en el Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Invited speakers&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/brettbaker/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dr. Brett Baker&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/authors/valeriedeanda/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dra. Valerie De Anda&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Dr. Leonardo Collado-Torres&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;program&#34;&gt;Program&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Day 1:&lt;/strong&gt; Generating reports and workflows with R markdown&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Presentation to CDSB.&lt;/li&gt;
&lt;li&gt;Talk: The latest version of the tree of life.&lt;/li&gt;
&lt;li&gt;Version control with GitHub and RStudio.&lt;/li&gt;
&lt;li&gt;Report generation with R markdown.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 2:&lt;/strong&gt; Reconstruction of genomes&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Talk: Turning your analysis flow into a R/Bioconductor package.&lt;/li&gt;
&lt;li&gt;Talk: Bioconductor packages related to metagenomics.&lt;/li&gt;
&lt;li&gt;Reconstruction of genomes.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 3:&lt;/strong&gt; Metabolic reconstruction and phylogenetic inference&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Taxonomic assignment.&lt;/li&gt;
&lt;li&gt;Analysis of metabolic pathways.&lt;/li&gt;
&lt;li&gt;MEBs&lt;/li&gt;
&lt;li&gt;Social session: Building the community.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 4:&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Collaborative metagenome projects.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Day 5:&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Collaborative metagenome projects.&lt;/li&gt;
&lt;li&gt;Project presentation.&lt;/li&gt;
&lt;li&gt;Closure.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Looking forward to see you!&lt;/p&gt;
&lt;h2 id=&#34;organizers&#34;&gt;Organizers&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://comunidadbioinfo.github.io/images/logo_hu887f29129fe527571c16cff89573bbf0_57814_0x70_resize_lanczos_2.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://www.zaragoza.unam.mx/portal/wp-content/Portal2015/Descargas/logo_unam_azul.jpg&#34; width=&#34;250px&#34;&gt;&lt;/a&gt;&lt;/p&gt;
&lt;h2 id=&#34;with-the-support-of&#34;&gt;With the support of:&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;https://bioconductor.org&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://bioconductor.org/images/logo_bioconductor.gif&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Workshops CDSB 2021: RStudio workflows and scRNA-seq with Bioconductor</title>
      <link>http://comunidadbioinfo.github.io/post/cdsb-2021-workshops/</link>
      <pubDate>Fri, 18 Jun 2021 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsb-2021-workshops/</guid>
      <description>&lt;p&gt;We are delighted to announce that 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;, along with the 
&lt;a href=&#34;https://twitter.com/RBioinformatica&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network&lt;/a&gt; (RMB in Spanish) and the 
&lt;a href=&#34;https://twitter.com/nnb_unam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics at UNAM&lt;/a&gt; (NNB-CCG), is organizing two week-long workshops this summer as part of the 
&lt;a href=&#34;http://congresos.nnb.unam.mx/EBM2021/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Bioinformatics Meeting Mexico 2021&lt;/a&gt;. These are:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2021_workflows/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Workflows with RStudio and creating &lt;code&gt;shiny&lt;/code&gt; apps&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/cdsb2021_scRNAseq/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Analysis of scRNA-seq data with Bioconductor&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;These workshops will be held online on August 9 to 13, 2021 and you can 
&lt;a href=&#34;http://congresos.nnb.unam.mx/EBM2021/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;strong&gt;register here&lt;/strong&gt;&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;We are looking forward to seeing you soon!&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/post/2021-01-27-cs_and_s_event_fund_award/english_cs_and_s_award.jpeg&#34; alt=&#34;CS and S Event Fund Thank you!&#34;&gt;&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;This summer CDSB organizes 2 workshops as part of the National Bioinformatics Meeting Mexico 2021&lt;br&gt;&lt;br&gt;Join us! &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/Bioconductor?ref_src=twsrc%5Etfw&#34;&gt;@Bioconductor&lt;/a&gt;&lt;br&gt;&lt;br&gt;🗓️ August 2-13&lt;br&gt;🙏🏽 &lt;a href=&#34;https://twitter.com/codeforsociety?ref_src=twsrc%5Etfw&#34;&gt;@codeforsociety&lt;/a&gt; &lt;a href=&#34;https://twitter.com/RConsortium?ref_src=twsrc%5Etfw&#34;&gt;@RConsortium&lt;/a&gt;&lt;br&gt;Org &lt;a href=&#34;https://twitter.com/RBioinformatica?ref_src=twsrc%5Etfw&#34;&gt;@RBioinformatica&lt;/a&gt;&lt;a href=&#34;https://twitter.com/nnb_unam?ref_src=twsrc%5Etfw&#34;&gt;@nnb_unam&lt;/a&gt;&lt;br&gt;Register&lt;a href=&#34;https://t.co/UJ1FAnxp52&#34;&gt;https://t.co/UJ1FAnxp52&lt;/a&gt;&lt;a href=&#34;https://t.co/tTwX0RAm0K&#34;&gt;https://t.co/tTwX0RAm0K&lt;/a&gt; &lt;a href=&#34;https://t.co/mUZ7DeSudB&#34;&gt;pic.twitter.com/mUZ7DeSudB&lt;/a&gt;&lt;/p&gt;&amp;mdash; ComunidadBioInfo (@CDSBMexico) &lt;a href=&#34;https://twitter.com/CDSBMexico/status/1411088526444269569?ref_src=twsrc%5Etfw&#34;&gt;July 2, 2021&lt;/a&gt;&lt;/blockquote&gt; &lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;
</description>
    </item>
    
    <item>
      <title>CS&amp;S Event Fund award announcement</title>
      <link>http://comunidadbioinfo.github.io/post/cs_and_s_event_fund_award/</link>
      <pubDate>Wed, 27 Jan 2021 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cs_and_s_event_fund_award/</guid>
      <description>&lt;p&gt;We are delighted to announce that 
&lt;a href=&#34;https://eventfund.codeforscience.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Code for Science and Society&lt;/a&gt; has selected our application for their first cohort of Event Fund grant recipients as announced on 
&lt;a href=&#34;https://eventfund.codeforscience.org/announcing/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;January 25, 2021&lt;/a&gt;. The CS&amp;amp;S Event Fund program is made possible through award number GBMF8449 from the Gordon and Betty Moore Foundation (&lt;a href=&#34;https://doi.org/10.37807/GBMF8449)&#34;&gt;https://doi.org/10.37807/GBMF8449)&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;Thanks to this support, 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt; along with the 
&lt;a href=&#34;https://twitter.com/RBioinformatica&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network&lt;/a&gt; (RMB in Spanish) and the 
&lt;a href=&#34;https://twitter.com/nnb_unam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics at UNAM&lt;/a&gt; (NNB-CCG) will be able to carry out a series of short courses throughout 2021 (including one event from December 2020) that will end with the National Bioinformatics Meeting 2021 that will be composed of 6 week-long courses.&lt;/p&gt;
&lt;p&gt;If you are interested in taking part in the short courses, please check the 
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/category/eventos-es/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RMB website&lt;/a&gt; for how to register.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;es&#34; dir=&#34;ltr&#34;&gt;Felicidades &lt;a href=&#34;https://twitter.com/ErickCuevasF?ref_src=twsrc%5Etfw&#34;&gt;@ErickCuevasF&lt;/a&gt; y &lt;a href=&#34;https://twitter.com/josschavezf1?ref_src=twsrc%5Etfw&#34;&gt;@josschavezf1&lt;/a&gt; por completar el primer mini curso de R de este ciclo ^^&lt;br&gt;&lt;br&gt;Son organizados por la CDSB y &lt;a href=&#34;https://twitter.com/RBioinformatica?ref_src=twsrc%5Etfw&#34;&gt;@RBioinformatica&lt;/a&gt; &lt;a href=&#34;https://twitter.com/nnb_unam?ref_src=twsrc%5Etfw&#34;&gt;@nnb_unam&lt;/a&gt; con apoyo de &lt;a href=&#34;https://twitter.com/codeforsociety?ref_src=twsrc%5Etfw&#34;&gt;@codeforsociety&lt;/a&gt; y &lt;a href=&#34;https://twitter.com/MooreFound?ref_src=twsrc%5Etfw&#34;&gt;@MooreFound&lt;/a&gt;&lt;br&gt;&lt;br&gt;El resto del calendario propuesto está disponible acá &lt;a href=&#34;https://twitter.com/hashtag/rstatsES?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstatsES&lt;/a&gt; &lt;a href=&#34;https://t.co/Gx1WHdnKgp&#34;&gt;https://t.co/Gx1WHdnKgp&lt;/a&gt;&lt;/p&gt;&amp;mdash; ComunidadBioInfo (@CDSBMexico) &lt;a href=&#34;https://twitter.com/CDSBMexico/status/1340104365156290560?ref_src=twsrc%5Etfw&#34;&gt;December 19, 2020&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;As stated in our application, our goals are:&lt;/p&gt;
&lt;blockquote&gt;
&lt;p&gt;Over the years, the workshops organized by NNB-CCG and, more recently, with the support of RMB have helped introduce an average of 40 participants per workshop every year into the world of open-source data analysis applied to bioinformatics. Many students, researchers, and industry members have found these workshops highly valuable to acquire skills at relatively low costs that empower them to succeed in the world of biological data. There are now participants who attend the introductory workshops one year and come back the next year for either other introductory workshops or those focusing on advanced material, which is where the CDSB steps in.&lt;/p&gt;
&lt;p&gt;CDSB has fostered the inclusion and collaboration of Latin American participants in the R and Bioconductor communities in the past three years. During the summer, one week CDSB courses (2018, 2019, and 2020) focused on developing advanced R programming skills. Supplemented by a Slack workspace, CDSB has set up the foundation for an inclusive community that supports and fosters collaboration, respect, and community building, as noted at &lt;a href=&#34;https://www.r-consortium.org/blog/2020/03/18/cdsb-diversity-and-outreach-hotspot-in-mexico&#34;&gt;https://www.r-consortium.org/blog/2020/03/18/cdsb-diversity-and-outreach-hotspot-in-mexico&lt;/a&gt; and BioC2020, JSM2020 and CDSB2020 presentations at &lt;a href=&#34;https://speakerdeck.com/lcolladotor&#34;&gt;https://speakerdeck.com/lcolladotor&lt;/a&gt; (CDSB2020 video about CDSB in Spanish: &lt;a href=&#34;https://www.youtube.com/watch?v=rtP4zmbR3p4)&#34;&gt;https://www.youtube.com/watch?v=rtP4zmbR3p4)&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;With the proposed short courses, RMB and CDSB, together with NNB-CCG, will provide a structured path to advance on software developing skills in R, and in bioinformatics, throughout the year. This will have a strong impact on integrating more members into the community. In our experience, many people in Latin America underestimate their programming abilities and avoid advanced courses that would provide them with additional skills to become tool developers. The proposed program will allow us to integrate people in different programming knowledge stages to the CDSB, reassess their programming skills, or improve them to get to the next stage. Our series of events will culminate with week-long workshops in the summer at the National Bioinformatics Meeting 2021.&lt;/p&gt;
&lt;/blockquote&gt;
&lt;p&gt;We greatly appreciate all the support and trust that has been placed on our CDSB + RMB + NNB-CCG team.&lt;/p&gt;
&lt;p&gt;Thank you!&lt;/p&gt;
&lt;p&gt;⭐️ co-founder; 💫 board member&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Leonardo Collado Torres, CDSB ⭐️💫&lt;/li&gt;
&lt;li&gt;Joselyn Chavez, CDSB 💫&lt;/li&gt;
&lt;li&gt;Alejandro Reyes, CDSB ⭐️💫&lt;/li&gt;
&lt;li&gt;Erick Cuevas Fernández, CDSB 💫&lt;/li&gt;
&lt;li&gt;Irma Martínez, Education coordinator at Mexican Bioinformatics Network (RMB in Spanish), National Bioinformatics Node representative (NNB in Spanish)&lt;/li&gt;
&lt;li&gt;Alejandra Medina Rivera, CDSB ⭐️💫, President RMB&lt;/li&gt;
&lt;li&gt;Shirley Alquicira, Project Manager at RMB, NNB&lt;/li&gt;
&lt;li&gt;Yalbi Balderas, Members Committee Coordinator at RMB&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/post/2021-01-27-cs_and_s_event_fund_award/english_cs_and_s_award.jpeg&#34; alt=&#34;CS and S Event Fund Thank you!&#34;&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>The impact of CDSB on me</title>
      <link>http://comunidadbioinfo.github.io/post/the_impact_of_cdsb_on_me/</link>
      <pubDate>Fri, 21 Aug 2020 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/the_impact_of_cdsb_on_me/</guid>
      <description>&lt;p&gt;&lt;em&gt;By 
&lt;a href=&#34;https://erickcufe.github.io&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Erick Cuevas Fernández&lt;/a&gt;, M. Sc., Bioinformatician. Universidad Nacional Autonoma de Mexico. Universidad Autonoma del Estado de Morelos. Systems Biology and Translational Medicine Laboratory. 
&lt;a href=&#34;https://twitter.com/ErickCuevasF&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@ErickCuevasF&lt;/a&gt;&lt;/em&gt;&lt;/p&gt;
&lt;p&gt;In 2018 I heard of a 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;workshop&lt;/a&gt; where 
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt; was performing in Mexico, at that time I had only a few months learning to use R, and I did not know who Martin Morgan was and had vague notions of Bioconductor. That year I started taking the 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;international bioinformatics workshops&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;It was thanks to taking the 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/cdsb-workshop-how-to-build-and-create-tidy-tools/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;2019 CDSB workshop&lt;/a&gt; that I was able to have a new international panorama of R development, know that there were events such as useR, BioC, rstudio :: global(), etc., It was highly motivated that a Mexican community was doing a effort to spread knowledge, inspire and expand the perspective of collaboration and development of free software to Mexicans.
As a graduate student and with the science cuts that are becoming more frequent in Mexico, it is difficult to travel to another country to attend a workshop or a congress, due to the issue of VISA, passport, paying for a flight, accommodation, meals and registration. That is why the CDSB workshop of international quality accessible by its location and cost are valued to many Mexican students. And not only that, the same CDSB helps and promotes the 
&lt;a href=&#34;https://www.r-consortium.org/blog/2020/03/18/cdsb-diversity-and-outreach-hotspot-in-mexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;application for scholarships&lt;/a&gt; for Mexican students in workshops and congresses for R developers in other countries.&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/post/2020-08-21-the_impact_of_cdsb_on_me/2018.jpg&#34; alt=&#34;TIBs 2018, Cuernavaca, Morelos, Mexico&#34;&gt;&lt;/p&gt;
&lt;p&gt;This 2020 with the pandemic and the promotion of the CDSB, was that I had the opportunity to attend the 
&lt;a href=&#34;https://bioc2020.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2020&lt;/a&gt;. The dedication and effort of each speaker to explain a relevant and specialized topic was amazing. The knowledge that was displayed in just one hour was shocking. Despite having been virtually, it was to admire Bioconductor&amp;rsquo;s commitment so that each exhibitor will generate interaction with all attendees. The inclusion and support of the Bioconductor community is impressive, willing to cooperate and help. Regardless of their age, nationality, gender, or grade, they all intended to help, cooperate, and share. There was a huge emotion to see Mexicans displaying their own packages, people you know physically, students like me.
At the end of the workshop I finished with a feeling of happiness, enthusiasm, inspiration, wanting to learn and share.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;&lt;a href=&#34;https://twitter.com/hashtag/BioC2020?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#BioC2020&lt;/a&gt; &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; My first BioC, I really enjoyed it a lot, opened up a universe for me. I feel responsible and enthusiastic to share what I have learned in my academic community and continue learning. I look forward to exhibiting my first first pack in BioC2021 next year &lt;a href=&#34;https://t.co/1K9dscoB1e&#34;&gt;pic.twitter.com/1K9dscoB1e&lt;/a&gt;&lt;/p&gt;&amp;mdash; Erick Cuevas (@ErickCuevasF) &lt;a href=&#34;https://twitter.com/ErickCuevasF/status/1289292982550556672?ref_src=twsrc%5Etfw&#34;&gt;July 31, 2020&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;The 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/cdsb2020-building-workflows-with-rstudio-and-scrnaseq-with-bioconductor/#.XmJT-Z-YU1I&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB 2020&lt;/a&gt; workshop was no exception, the entire community transmitted that spark of enthusiasm, to expand and improve. Of course, the academic content and knowledge that was shown was a lot, such as maintaining the R sessions, working with github, choosing appropriate names for each project, quality testing the functions, debugging, workflows for handling scRNAseq data and an application of it with space expression.&lt;/p&gt;
&lt;p&gt;As I think about the CDSB and the international communities that support inclusion and diversity, I think of this excerpt from the poem “sembrando” by the poet Marcos Rafael Blanco Belmonte (originally in Spanish):&lt;/p&gt;
&lt;center&gt;
When the world sad, I contemplate,
&lt;p&gt;I toil and set myself a hard task&lt;/p&gt;
&lt;p&gt;and I know that my poor example is worth a lot&lt;/p&gt;
&lt;p&gt;Although poor and humble it seems and be&lt;/p&gt;
&lt;p&gt;We must fight for all those who do not fight!&lt;/p&gt;
&lt;p&gt;We must ask for all those who do not implore!&lt;/p&gt;
&lt;p&gt;We must make those who do not listen hear us!&lt;/p&gt;
&lt;p&gt;We must cry for all those who do not cry!&lt;/p&gt;
&lt;p&gt;Have to be like bees in the hive&lt;/p&gt;
&lt;p&gt;make sweet honeycombs for everyone.&lt;/p&gt;
&lt;p&gt;Have to be like the water that goes serene&lt;/p&gt;
&lt;p&gt;giving the whole world fresh streams.&lt;/p&gt;
&lt;p&gt;Must imitate the wind, which sows flowers&lt;/p&gt;
&lt;p&gt;the same in the mountains as in the plains,&lt;/p&gt;
&lt;p&gt;and have to live life sowing loves,&lt;/p&gt;
&lt;p&gt;with the sight and the soul always in the height.&lt;/p&gt;
&lt;p&gt;The madman said and with noble melancholy&lt;/p&gt;
&lt;p&gt;through the scrublands of the mountain he continued to climb,&lt;/p&gt;
&lt;p&gt;and when lost in the shadows, he still repeated:&lt;/p&gt;
&lt;p&gt;Have to live sowing! Always sowing!&amp;hellip;&lt;/p&gt;
&lt;/center&gt;
</description>
    </item>
    
    <item>
      <title>Latin American communities and organizations: useR!2020 video</title>
      <link>http://comunidadbioinfo.github.io/post/user_latin_american_community/</link>
      <pubDate>Wed, 08 Jul 2020 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/user_latin_american_community/</guid>
      <description>&lt;p&gt;&lt;em&gt;This useR!2020 session and video was organized by 
&lt;a href=&#34;https://twitter.com/_lacion_&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Laura Acion&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/yabellini&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Yanina Bellini Saibene&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/PaobCorrales&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Paola Corrales&lt;/a&gt;, and 
&lt;a href=&#34;https://twitter.com/palolili23&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Paloma Rojas Saunero&lt;/a&gt;. 
&lt;a href=&#34;https://twitter.com/lcolladotor&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado Torres&lt;/a&gt; coordinated the blog post submission. This blog post was originally submitted to the 
&lt;a href=&#34;https://www.r-consortium.org/blog/2020/07/07/latin-american-communities-and-organizations-at-user2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Consortium blog&lt;/a&gt; and published there on July 7th 2020.&lt;/em&gt;&lt;/p&gt;
&lt;p&gt;On June 19th 2020 we filmed a video for 
&lt;a href=&#34;https://user2020.r-project.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;useR!2020&lt;/a&gt; showcasing the communities and organizations we are involved in that are for Latin Americans or have Latin American participants. In this blog post, we wanted to highlight these initiatives and remind everyone that we are more than happy to help you launch similar initiatives in your local communities.&lt;/p&gt;
&lt;img src=&#34;https://lh6.googleusercontent.com/Bo9ZwbNi1uLUYehBm3n-OnoJ_QXolp1uY1wotBKqE4U1JY9l_EsughzZmkhPbydxsCP-MmgqEysgfAdMfcIEbPY0uLkVBsPk1LoETPes-zPqqE7Olway4MFuE5XacV6KKXkLBn9o&#34; width=&#34;800px&#34;/&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/LatinR_Conf&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;LatinR&lt;/a&gt;: 
&lt;a href=&#34;https://latin-r.com/en&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;LatinR&lt;/a&gt; is a trilingual international conference on the use of R in research and development across Latin America. Since launching in 2018, our annual meetings have been a starting point for new packages, local user groups, reading clubs, R-Ladies chapters, translations, and other initiatives in the region.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/conecta_R&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;ConectaR&lt;/a&gt;: ConectaR 2019 took place during January 24-26, 2019 at the University of Costa Rica, in San José, Costa Rica. It was the first event in Central America endorsed by The R Foundation, and it was held completely in Spanish. You can find more information 
&lt;a href=&#34;https://journal.r-project.org/archive/2019-2/conectaR.pdf&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;here&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/satRdays_org&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;satRday&lt;/a&gt;: 
&lt;a href=&#34;https://satrdays.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;satRday&lt;/a&gt; is a conference about R and its applications, that happens all over the world, and it is organized by the local community. Two satRdays events happened in Latin America: in Santiago - Chile and São Paulo - Brazil. If you want to organize a satRday anywhere in Latin America, please get it touch so we can help each other!&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/RLadiesGlobal&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R-Ladies&lt;/a&gt;: 
&lt;a href=&#34;https://rladies.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R-Ladies&lt;/a&gt; is a global organisation that promotes gender diversity in the R community. It has 123 active chapters in 51 countries around the world, of which 49 are found across 10 Latin American countries. Some Latin Americans are part of the R-Ladies Global Team, including its leadership. COVID-19 has not stopped us, instead, we have migrated online and fostered alliances among different chapters. All in an effort to give gender minorities in the R community the opportunity to learn R in a safe and supportive environment. Join us!&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/rOpenSci&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci&lt;/a&gt;: R for open science, 
&lt;a href=&#34;https://ropensci.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci&lt;/a&gt;, provides free technical review of R packages to improve the quality of open source software in order to maximize readability, usability, usefulness, and minimize redundancy. Their peer-review process will soon be translated to Spanish and you can get involved!&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;: the 
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Community of Bioinformatics Software Developers&lt;/a&gt; (CDSB in Spanish) was born in 2018 with the goal of helping Latin American R users become R &amp;amp; 
&lt;a href=&#34;http://bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor&lt;/a&gt; developers and increase the representation of Latinx in these communities. For more information about CDSB check 
&lt;a href=&#34;http://bit.ly/cdsbpost2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;bit.ly/cdsbpost2020&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://www.r-consortium.org/projects/r-user-group-support-program&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RUGs&lt;/a&gt;: there are several R User Groups in Latin America, some of which are officially sponsored by the 
&lt;a href=&#34;https://twitter.com/RConsortium&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Consortium&lt;/a&gt;. We believe that creating a welcoming space is crucial for keeping the ideas flowing, which allows for meaningful networking and, consequently, the development of new projects. We can help you start your own group!&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/R4DS_es&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R4DS&lt;/a&gt; in Spanish + &lt;code&gt;datos&lt;/code&gt; package: the resources to learn R in English are many, awesome, online, and free. But in Latin America few people can afford to learn English, and the resources in Spanish are few. To help solve this problem, we community-translated to 
&lt;a href=&#34;https://es.r4ds.hadley.nz/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Spanish the “R for Data Science” book&lt;/a&gt; and developed a package with the translation of all the datasets used in it: 
&lt;a href=&#34;https://cran.r-project.org/web/packages/datos/index.html&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;code&gt;datos&lt;/code&gt;&lt;/a&gt;. The workflow to contribute to the package was designed to engage first-time contributors, and is now guiding the development of a new version in Portuguese that will be released in the next few months.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/hashtag/datosdemiercoles&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#DatosDeMiércoles&lt;/a&gt; + 
&lt;a href=&#34;https://twitter.com/hashtag/30diasdegraficos&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#30díasdegráficos&lt;/a&gt;: The 
&lt;a href=&#34;https://twitter.com/R4DS_es&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@R4DS_es&lt;/a&gt; Twitter account was created as a way to share projects like the R4DS translation and to develop initiatives to foster the Spanish-speaking R community,  like #datosdemieRcoles, the Latin American cousin of 
&lt;a href=&#34;https://twitter.com/hashtag/tidytuesday&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#TidyTuesday&lt;/a&gt;. The idea is not only to use datasets that are in Spanish, but also datasets that are relevant for our Region. This initiative has been complemented with the 30 days plot challenge #30díasdegráficos. If you want to participate proposing a dataset for #datodemiéRcoles, please visit our 
&lt;a href=&#34;https://github.com/cienciadedatos/datos-de-miercoles&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;github repo&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/thecarpentries&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;The Carpentries&lt;/a&gt;: 
&lt;a href=&#34;https://carpentries.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;The Carpentries&lt;/a&gt; builds global capacity in essential data and computational skills for conducting efficient, open, and reproducible research. Building a sustainable and active community in Latin America includes several initiatives: lesson translations, instructor training, workshop coordination, and fundraising. Get in touch with us through the mailing list and the carpentries-es channel at the 
&lt;a href=&#34;https://swc-slack-invite.herokuapp.com/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Carpentries Slack workspace&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/ReproHack&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;ReproHack&lt;/a&gt;: 
&lt;a href=&#34;https://reprohack.github.io/reprohack-hq/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;ReproHack&lt;/a&gt; is a growing community for researchers that are fighting the reproducibility crisis by sharing their experiences across disciplines. It is focused on organizing hackathons where participants attempt to reproduce published research from a list of proposed papers with public code and data. We are planning the first ReproHack in Spanish for October 2020 and you can get in touch with us through 
&lt;a href=&#34;https://twitter.com/ReproHack&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Twitter&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/AIinclusive&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;AI Inclusive&lt;/a&gt;: 
&lt;a href=&#34;https://www.ai-inclusive.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;AI Inclusive&lt;/a&gt; is an organization that promotes diversity in the AI Community. We want to bring awareness around Artificial Intelligence issues and empower the community so they can enter in the AI field, a field that is not diverse at all. In December 2019, we had our launch events in Rio de Janeiro, Brazil and San Francisco, California. Follow us and join us!&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://twitter.com/datalatam&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Data Latam&lt;/a&gt;: in May 2016 we started with the first 
&lt;a href=&#34;http://www.datalatam.com/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Data Latam podcast&lt;/a&gt;, aimed at offering an easy entry point, in Spanish, to those interested in data science. We always ask our interviewees: “How did you get where you are?”, and the diversity of stories has been enormous. Today Data Latam is a Latin American community of professionals and academics, who apply data science in their day to day work and we invite you to participate!&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;What happens in the R Community doesn’t stay in the R Community. All the good practices of inclusive and diverse communities learned in several of the initiatives presented before, generate strong work teams within and beyond the R community. There is still a lot to be done, but what we’ve already achieved is very encouraging and provides a solid foundation for the future.&lt;/p&gt;
&lt;p&gt;These initiatives are sustained by many people making a great, mostly volunteer, effort behind the scenes. Some of the challenges that the communities face are translated into multiple positives, sustained, and a lot of invisible hard work. Some of them are: finding international funding due to limited local options, translating content, joining forces across organizations, organizing regional conferences, and becoming active developers of the technology.&lt;/p&gt;
&lt;p&gt;The Latin American R community is growing fast and so does the responsibility to make this growth solid and safe. Some of the future work that we, as community builders, look forward to fulfilling are: consolidating regional conferences with support of international sponsors; acquiring funding to sustain translations; amplifying the voices of regional minorities; importing educational material and work opportunities; connecting expats with their local communities; helping other groups such as RUGs and RLadies; connecting with other initiatives such as 
&lt;a href=&#34;https://twitter.com/R_Forwards&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R-Forwards&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/AfricaRUsers&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Africa-R&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/miR_community&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;MiR&lt;/a&gt;, among others; Increase our and other minorities representation in the 
&lt;a href=&#34;https://www.r-project.org/contributors.html&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Core Team&lt;/a&gt;, the 
&lt;a href=&#34;https://www.r-project.org/foundation/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Foundation&lt;/a&gt;, and the 
&lt;a href=&#34;https://twitter.com/RConsortium&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Consortium&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;&lt;strong&gt;Thank you! Please watch our useR! 2020 video on 
&lt;a href=&#34;https://youtu.be/gtRntU2J3Cg&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;YouTube&lt;/a&gt;.&lt;/strong&gt;&lt;/p&gt;
&lt;img src=&#34;https://lh3.googleusercontent.com/GRMf3aoxL1mUH_3kgme-xhtba7b6JDnOlMFDP2MvtvL0Y3-ciBsqSoHtLmMm5WLXj-DZEJIgzJDhfLIy-UlvgN7FxOm-sTjvfTBFJF-SKZZW9VoftTG70EYnVY4FobOiSi8WX7GR&#34; width=&#34;800px&#34;/&gt;
</description>
    </item>
    
    <item>
      <title>CDSB: the story of a diversity and outreach hotspot in Mexico that hopes to empower local R developers</title>
      <link>http://comunidadbioinfo.github.io/post/csdb-story-of-a-diversity-and-outreach-hotspot-in-mexico/</link>
      <pubDate>Tue, 17 Mar 2020 00:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/csdb-story-of-a-diversity-and-outreach-hotspot-in-mexico/</guid>
      <description>&lt;p&gt;&lt;em&gt;This blog post was submitted to the 
&lt;a href=&#34;https://www.r-consortium.org/blog/2020/03/18/cdsb-diversity-and-outreach-hotspot-in-mexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R Consortium blog&lt;/a&gt; where it was published on 03/18/2020.&lt;/em&gt;&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/2019-08-03-11.52.16.jpg&#34; width=&#34;800px&#34; /&gt;&lt;/p&gt;
&lt;p&gt;I have been attending R conferences since 2008, and while I’ve seen the R community grow rapidly, I generally don’t encounter as many Latin Americans (LatAm) among communities of R developers. Traditionally, a lab lead investigator invested in R or Bioconductor would teach their trainees and students these skills, becoming a local R hotspot. However, that scenario is uncommon in Mexico for several reasons. Recognizing some of these challenges and driven to promote R in our home country and LatAm, in 2017 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; and 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;I&lt;/a&gt; teamed up with 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina Rivera&lt;/a&gt; and 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/hsalgado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Heladia Salgado&lt;/a&gt; to eventually launch the Community of Bioinformatics Software Developers (
&lt;a href=&#34;https://comunidadbioinfo.github.io&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt; in Spanish) in 2018. One of our goals is to facilitate and encourage the transition from R user to R/Bioconductor developer. We have organized yearly one-week long workshops together with 
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;NNB-UNAM&lt;/a&gt; and 
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RMB&lt;/a&gt; and just announced our 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/cdsb2020-building-workflows-with-rstudio-and-scrnaseq-with-bioconductor/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;2020 workshop&lt;/a&gt; (August 3-7 2020 Cuernavaca, Mexico).&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;If you are fighting for change, know that even when things feel hard and progress is slow (or seems nonexistent), you are still creating and holding space for those who will come after you. Even if you can’t see it now, the impact of your work will be visible in the future.&lt;/p&gt;&amp;mdash; Jen Heemstra (@jenheemstra) &lt;a href=&#34;https://twitter.com/jenheemstra/status/1235568526892515329?ref_src=twsrc%5Etfw&#34;&gt;March 5, 2020&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;Now unto our third workshop, I feel like we’ve had several success stories.&lt;/p&gt;
&lt;p&gt;CDSB2018 alumni wrote a 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-gene-regulatory-interaction-formulator-for-inquiring-networks/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;blog post&lt;/a&gt; about their R GitHub package: &lt;code&gt;rGriffin&lt;/code&gt;.
CDSB2018 alumni 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/path-from-cdsbmexico-2018-to-bioc2019/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;secured BioC2019 travel scholarships&lt;/a&gt; and presented their work.
Three CDSB2018 and 2019 alumni submitted the 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/from-bioconductor-users-to-developers-our-first-community-submission/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;first package to Bioconductor (&lt;code&gt;regutools&lt;/code&gt;)&lt;/a&gt;, representing a significant percent-wise increase in the representation of LatAms in the Bioconductor developers community.&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/regutools/alumni.png&#34; width=&#34;600px&#34; /&gt;&lt;/p&gt;
&lt;p&gt;We have greatly benefited from the logistics and organization support by 
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;NNB-UNAM&lt;/a&gt; and 
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RMB&lt;/a&gt; local teams, allowing us to focus on designing the workshop curriculum and inviting a diverse set of instructors, including 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/mteresa/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt; who is an 
&lt;a href=&#34;https://twitter.com/RLadiesCDMX&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RLadiesCDMX&lt;/a&gt; co-founder and has been supporting us from the beginning. However, we face economic challenges as the budget for the national science foundation (CONACyT) has decreased in recent years. The support by the small R conference fund by R Consortium and other sponsors has been instrumental, as well as diversity and travel scholarships some of our instructors have secured at R conferences. We just recently revamped our sponsor page and answered the question: 
&lt;a href=&#34;https://comunidadbioinfo.github.io/niveles-de-patrocinio/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;why should you support us?&lt;/em&gt;&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;However, while we are just getting started, one of our highlights was born by 
&lt;a href=&#34;https://ropensci.org/blog/2018/11/01/icebreaker/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci’s icebreaker exercise&lt;/a&gt; at CDSB2019. We were able to really build a sense of community and desire to perform outreach activities at our local communities. Particularly, a CDSB2018 and 19 alumni, 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/josschavezf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn Chávez&lt;/a&gt;, volunteered to join the CDSB board. At CDSB2019 we also created an #rladies channel in our Slack where at the time we had members of 3/4 Mexico’s RLadies chapters (
&lt;a href=&#34;https://twitter.com/RLadies_Qro&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Qro&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/RLadiesXalapa&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Xalapa&lt;/a&gt;, 
&lt;a href=&#34;https://twitter.com/RLadiesCDMX&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDMX&lt;/a&gt;) and now have 5/6 (
&lt;a href=&#34;https://twitter.com/RLadiesCuerna&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Cuerna&lt;/a&gt;, 
&lt;a href=&#34;https://www.meetup.com/rladies-monterrey/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Monterrey&lt;/a&gt;), as CDSB2018 and CDSB2019 alumni have been co-founders of two chapters: 
&lt;a href=&#34;https://anabva.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Ana Beatriz Villaseñor-Altamirano&lt;/a&gt; for Qro and 
&lt;a href=&#34;https://comunidadbioinfo.github.io/authors/josschavezf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn Chávez&lt;/a&gt; for Cuerna.&lt;/p&gt;
&lt;p&gt;I am proud and excited of what we have achieved with our one-week long CDSB workshops, but also with how we used the tools we’ve learnt from other communities in order to keep interacting and communicating throughout the rest of the year. Time will tell if our efforts created a ripple that grew into a wave or if we’ll end burning out. Sustainability is a challenge, but we are greatly motivated by the impact we’ve had and can only imagine a brighter future.&lt;/p&gt;
&lt;iframe src=&#34;https://giphy.com/embed/26hitlrnI4k5dKPPq&#34; width=&#34;480&#34; height=&#34;320&#34; frameBorder=&#34;0&#34; class=&#34;giphy-embed&#34; allowFullScreen&gt;&lt;/iframe&gt;&lt;p&gt;&lt;a href=&#34;https://giphy.com/gifs/studiosoriginals-stay-strong-comfort-26hitlrnI4k5dKPPq&#34;&gt;via GIPHY&lt;/a&gt;&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Community of Bioinformatics Software Developers (CDSB): The story of a diversity and outreach hotspot in Mexico that hopes to empower local R developers - &lt;a href=&#34;https://t.co/QMcNRUy1gl&#34;&gt;https://t.co/QMcNRUy1gl&lt;/a&gt; &lt;a href=&#34;https://twitter.com/fellgernon?ref_src=twsrc%5Etfw&#34;&gt;@fellgernon&lt;/a&gt; &lt;a href=&#34;https://twitter.com/andrewejaffe?ref_src=twsrc%5Etfw&#34;&gt;@andrewejaffe&lt;/a&gt; &lt;a href=&#34;https://twitter.com/LieberInstitute?ref_src=twsrc%5Etfw&#34;&gt;@LieberInstitute&lt;/a&gt; &lt;a href=&#34;https://twitter.com/lcgunam?ref_src=twsrc%5Etfw&#34;&gt;@lcgunam&lt;/a&gt; &lt;a href=&#34;https://twitter.com/jhubiostat?ref_src=twsrc%5Etfw&#34;&gt;@jhubiostat&lt;/a&gt; &lt;a href=&#34;https://twitter.com/jtleek?ref_src=twsrc%5Etfw&#34;&gt;@jtleek&lt;/a&gt; &lt;a href=&#34;https://twitter.com/LIBDrstats?ref_src=twsrc%5Etfw&#34;&gt;@LIBDrstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://t.co/TmZmxTRwOv&#34;&gt;pic.twitter.com/TmZmxTRwOv&lt;/a&gt;&lt;/p&gt;&amp;mdash; R Consortium (@RConsortium) &lt;a href=&#34;https://twitter.com/RConsortium/status/1240293207755444225?ref_src=twsrc%5Etfw&#34;&gt;March 18, 2020&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


</description>
    </item>
    
    <item>
      <title>BioC2019 Code of Conduct violation response</title>
      <link>http://comunidadbioinfo.github.io/post/bioc2019-code-of-conduct-violation-response/</link>
      <pubDate>Mon, 09 Mar 2020 18:30:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/bioc2019-code-of-conduct-violation-response/</guid>
      <description>&lt;p&gt;For the English version of this statement, please go to the 
&lt;a href=&#34;https://bioc2019.bioconductor.org/code_of_conduct&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019 Code of Conduct website&lt;/a&gt;. At CDSB&amp;rsquo;s website you can find the 
&lt;a href=&#34;https://comunidadbioinfo.github.io/es/post/bioc2019-code-of-conduct-violation-response/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;translated Spanish version of this statement&lt;/a&gt;.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>CDSB Workshop 2020: Building workflows with RStudio and Bioconductor for single cell RNA-seq analysis</title>
      <link>http://comunidadbioinfo.github.io/post/cdsb2020-building-workflows-with-rstudio-and-scrnaseq-with-bioconductor/</link>
      <pubDate>Thu, 05 Mar 2020 13:30:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsb2020-building-workflows-with-rstudio-and-scrnaseq-with-bioconductor/</guid>
      <description>&lt;p&gt;&lt;em&gt;This workshop is part of the 
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2020/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Encounter (EBM in Spanish) 2020&lt;/a&gt; organized by CDSB with:&lt;/em&gt;&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;TIB2020&lt;/th&gt;
&lt;th&gt;RMB&lt;/th&gt;
&lt;th&gt;NNB&lt;/th&gt;
&lt;th&gt;CCG-UNAM&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2020/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/TIF-Logo_2020.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;150px&#34; /&gt;&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h4 id=&#34;community-of-bioinformatics-software-developers-cdsb&#34;&gt;Community of Bioinformatics Software Developers (CDSB)&lt;/h4&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/cdsb2020-building-workflows-with-rstudio-and-scrnaseq-with-bioconductor/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Workshop webpage&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Level: &lt;strong&gt;intermediate - advanced&lt;/strong&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Language: &lt;strong&gt;Spanish&lt;/strong&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;When: August 3 - August 7, 2020 (9 am to 5:30 pm, Friday until 2:30 pm)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Where: Online through the Zoom platform. Hours are based on Mexico&amp;rsquo;s central time zone.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Twitter: 
&lt;a href=&#34;https://www.twitter.com/CDSBMexico/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Facebook: 
&lt;a href=&#34;https://www.facebook.com/CDSBMexico/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;GitHub: 
&lt;a href=&#34;https://github.com/ComunidadBioInfo/cdsb2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://github.com/ComunidadBioInfo/cdsb2020&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2020/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Registration&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;summary&#34;&gt;&lt;strong&gt;Summary&lt;/strong&gt;&lt;/h2&gt;
&lt;p&gt;Join us for our 2020 workshop! This year we’ll teach you how to improve your skills for interacting with the R programming language with diverse strategies for organizing your code and projects. This will help you document your analyses such that they are easily to reproduce and for sharing them with your collaborators (from academia to industry). As a use case, we will learn the statistical tools needed for analyzing single cell transcriptomics (scRNA-seq) data using Bioconductor. Completing this workshop will help you in all your R projects and your analyses of biological data: all your analyses will benefit from the organization skills and the ideas behind scRNA-seq are used in many bioinformatics projects.&lt;/p&gt;
&lt;iframe src=&#34;https://giphy.com/embed/L40sNfcoJs5Op5afQU&#34; width=&#34;480&#34; height=&#34;240&#34; frameBorder=&#34;0&#34; class=&#34;giphy-embed&#34; allowFullScreen&gt;&lt;/iframe&gt;&lt;p&gt;&lt;a href=&#34;https://giphy.com/gifs/hustlersmovie-hustlers-movie-hustler-L40sNfcoJs5Op5afQU&#34;&gt;via GIPHY&lt;/a&gt;&lt;/p&gt;
&lt;h2 id=&#34;requirements&#34;&gt;&lt;strong&gt;Requirements&lt;/strong&gt;&lt;/h2&gt;
&lt;p&gt;&lt;strong&gt;Requirements prior knowledge&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Participants should have basic to intermediate knowledge of the R programming language: variable assignment, reading files: &lt;code&gt;read.csv&lt;/code&gt;; data structures: &lt;code&gt;matrix&lt;/code&gt;, &lt;code&gt;data.frame&lt;/code&gt;, &lt;code&gt;list&lt;/code&gt;; data types: &lt;code&gt;character&lt;/code&gt;, &lt;code&gt;numeric&lt;/code&gt;, &lt;code&gt;factor&lt;/code&gt;, &lt;code&gt;logical&lt;/code&gt;, etc; installation and use of packages.&lt;/li&gt;
&lt;li&gt;Know how to use RStudio.&lt;/li&gt;
&lt;li&gt;Be interested in learning good practices for organizing your work and sharing your work with others.&lt;/li&gt;
&lt;li&gt;Be interested in learning how to analyze biological data using R/Bioconductor packages.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Technical requirements&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Personal computer. Minimum 8GB RAM, a mouse and sufficient disk space for text files and image files. Administrator privileges to install and run utilities such as RStudio.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;overview&#34;&gt;&lt;strong&gt;Overview&lt;/strong&gt;&lt;/h2&gt;
&lt;p&gt;In recent years, 
&lt;a href=&#34;https://cran.r-project.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R&lt;/a&gt; has become one of the most used programming languages for data science. The explosion in data available in many fields has increased the demand for data analysts, which is the case in Bioinformatics. &lt;code&gt;R&lt;/code&gt; users start by learning how to use the tools others have openly shared with the international community. These &lt;code&gt;R&lt;/code&gt; users acquire skills as they continue to analyze data and might even start to interact with &lt;code&gt;R&lt;/code&gt; software developers through community websites such as 
&lt;a href=&#34;https://community.rstudio.com/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RStudio Community&lt;/a&gt;, 
&lt;a href=&#34;https://support.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor Support&lt;/a&gt; or via Twitter using the 
&lt;a href=&#34;https://twitter.com/search?q=%23rstats&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#rstats hashtag&lt;/a&gt;. Eventually some &lt;code&gt;R&lt;/code&gt; users will want to write their own functions and organize their code across several projects. It is at this point that it’s useful to learn how to organize your code in order to make your life as an R programmer easier, such that you spend more time on your projects instead of remembering where your code is or what you did a few weeks ago. In order to practice these concepts, we will review the most recent methods for analyzing single cell RNA sequencing (scRNA-seq) data using R packages specialized for this goal that are freely available through 
&lt;a href=&#34;https://bioconductor.org&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;The instructors of this workshop have participated at CDSB since its foundation and have gone to conferences such as 
&lt;a href=&#34;http://bioc2019.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019&lt;/a&gt; and 
&lt;a href=&#34;https://resources.rstudio.com/rstudio-conf-2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rstudio::conf(2020)&lt;/a&gt;, among others. In recent years we taught how to make R and Bioconductor packages, which are of great use for sharing code with others. Recently, CDSB alumni sent their 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/from-bioconductor-users-to-developers-our-first-community-submission/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;first R package to Bioconductor&lt;/a&gt;, which represented a huge percent increase of Latin American representation in the Bioconductor developers community, thus demonstrating that participating at a CDSB workshop has an impact beyond the one week workshop. For 2020 we will have an applied focus while maintaining our goals at CDSB which are:&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;
&lt;p&gt;Turn (bioinformatics) software users into (bioinformatics) software developers.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Foster the exchange of expertise and establish multidisciplinary collaborations.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Create a community of Latin American scientists committed to the development of software and computational pipelines for (biological) data analysis.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Help train users that can become local instructors and continue to grow their local communities.&lt;/p&gt;
&lt;/li&gt;
&lt;/ol&gt;
&lt;p&gt;The scRNA-seq portion of the workshop will be based on the book 
&lt;a href=&#34;https://osca.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;Orchestrating Single Cell Analysis with Bioconductor&lt;/em&gt;&lt;/a&gt; that was published by &lt;em&gt;Nature Methods&lt;/em&gt; (
&lt;a href=&#34;https://doi.org/10.1038/s41592-019-0654-x&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;DOI&lt;/a&gt;) and is among the 
&lt;a href=&#34;https://www.altmetric.com/details/71569824&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;most publicized papers&lt;/a&gt; in 2020.&lt;/p&gt;
&lt;p&gt;This workshop is part of a long-term project to create a community of developers from Latin America. We hope to hold regular meetings in the future (similar to BioC, EuroBioc and BioCAsia) where attendees present their own software contributions. To provide a welcoming environment please follow our 
&lt;a href=&#34;https://comunidadbioinfo.github.io/codigo-de-conducta/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;code of conduct&lt;/a&gt;.&lt;/p&gt;
&lt;h2 id=&#34;program&#34;&gt;&lt;strong&gt;Program&lt;/strong&gt;&lt;/h2&gt;
&lt;p&gt;9 am to 5:30 pm on Mexico&amp;rsquo;s central time zone (Friday we end at 2:30 pm) with breaks and time to eat. The detailed schedule and the Zoom links will be provided to those participants that register for the event through the private CDSB Google Calendar. For more schedule details check 
&lt;a href=&#34;https://github.com/ComunidadBioInfo/cdsb2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;the CDSB2020 workshop GitHub repository&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;Every day we will have a help session from 8 to 9 am for those that need help installing the required software for the workshop.&lt;/p&gt;
&lt;p&gt;Day 1&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;EBM2020 inauguration&lt;/li&gt;
&lt;li&gt;Welcome to CDSB&lt;/li&gt;
&lt;li&gt;Participants self introductions&lt;/li&gt;
&lt;li&gt;Workflow around RStudio projects:
&lt;ul&gt;
&lt;li&gt;Introduction to the project-oriented workflow.&lt;/li&gt;
&lt;li&gt;Working with projects against scripts.&lt;/li&gt;
&lt;li&gt;Creating a project.&lt;/li&gt;
&lt;li&gt;Using safe paths.&lt;/li&gt;
&lt;li&gt;How should I name my file?&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Day 2&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Using Git and GitHub.&lt;/li&gt;
&lt;li&gt;Modifying the R startup files.&lt;/li&gt;
&lt;li&gt;Writing and documenting functions.&lt;/li&gt;
&lt;li&gt;Debugging R code.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Day 3&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Good practice for configuring and maintain workspaces.&lt;/li&gt;
&lt;li&gt;Remote picture / video.&lt;/li&gt;
&lt;li&gt;Installing R packages from source.&lt;/li&gt;
&lt;li&gt;General overview of single cell RNA-seq (scRNA-seq) data processing&lt;/li&gt;
&lt;li&gt;Community-building activities&lt;/li&gt;
&lt;li&gt;Overview of the scRNA-seq material&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Day 4&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Introduction to scRNA-seq&lt;/li&gt;
&lt;li&gt;Introduction to scRNA-seq with Bioconductor&lt;/li&gt;
&lt;li&gt;Data infrastructure and data import&lt;/li&gt;
&lt;li&gt;Quality control&lt;/li&gt;
&lt;li&gt;Data normalization&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Day 5&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Feature selection&lt;/li&gt;
&lt;li&gt;Dimension reduction&lt;/li&gt;
&lt;li&gt;Clustering and differential gene expression analysis&lt;/li&gt;
&lt;li&gt;spatialLIBD: analyzing data from the Visium assay by 10x Genomics&lt;/li&gt;
&lt;li&gt;Workshop evaluation&lt;/li&gt;
&lt;li&gt;Closing ceremony and CDSB reminders&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;instructors&#34;&gt;&lt;strong&gt;Instructors&lt;/strong&gt;&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt; (International Laboratory for Human Genome Research, Juriquilla, Querétaro, Mexico) Alejandra recently presented a 
&lt;a href=&#34;https://twitter.com/MxPyladies/status/1233208231184543745?s=20&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;keynote at the Women in Data Science&lt;/a&gt; event in Mexico City.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; (Data Scientist, Novartis, Basel, Switzerland). Alejandro recently worked on the 
&lt;a href=&#34;http://bioconductor.org/packages/regutools&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;regutools&lt;/a&gt; project with CDSB alumni that was published at 
&lt;a href=&#34;https://academic.oup.com/bioinformatics/article-abstract/doi/10.1093/bioinformatics/btaa575/5861528?redirectedFrom=fulltext&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Oxford Bioinformatics&lt;/a&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/josschavezf&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn Chávez&lt;/a&gt; (IBT-UNAM, Cuernavaca, Morelos, Mexico). Joselyn presented her work at 
&lt;a href=&#34;http://bioc2019.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019&lt;/a&gt; thanks to a travel award, attended 
&lt;a href=&#34;https://resources.rstudio.com/rstudio-conf-2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rstudio::conf(2020)&lt;/a&gt; thanks to a diversity scholarship where she took the &lt;em&gt;What They Forgot to Teach You about R&lt;/em&gt; workshop, and recently was part of the 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/from-bioconductor-users-to-developers-our-first-community-submission/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;first &lt;code&gt;R&lt;/code&gt; package submission to Bioconductor by CDSB alumni&lt;/a&gt;. She initially was a CDSB2018 student.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; (Lieber Institute for Brain Development, Baltimore, MD, USA). Leonardo recently published a 
&lt;a href=&#34;https://twitter.com/lcolladotor/status/1233661576433061888?s=20&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;pre-print on spatial transcriptomics using 10xGenomics Visium data&lt;/a&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mramos/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Marcel Ramos Perez&lt;/a&gt; (Roswell Park Comprehensive Cancer Center and CUNY School of Public Health, USA). Marcel is part of the 
&lt;a href=&#34;http://bioconductor.org/about/core-team/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor Core Team&lt;/a&gt; and is the author of many Bioconductor packages including 
&lt;a href=&#34;http://bioconductor.org/packages/MultiAssayExperiment&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;MultiAssayExperiment&lt;/a&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mteresa/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt; (CONABIO and ITAM, Mexico). Teresa presented at 
&lt;a href=&#34;https://resources.rstudio.com/rstudio-conf-2020&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rstudio::conf(2020)&lt;/a&gt; her work on fast counting algorithms for Mexican presidential elections.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;organizing-committee&#34;&gt;&lt;strong&gt;Organizing committee&lt;/strong&gt;&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt; (International Laboratory for Human Genome Research, Juriquilla, Querétaro, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; (Data Scientist, Novartis, Basel, Switzerland)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/josschavezf&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn Chávez&lt;/a&gt; (IBT-UNAM, Cuernavaca, Morelos, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; (Lieber Institute for Brain Development, Baltimore, MD, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;code-of-conductcodigo-de-conducta&#34;&gt;&lt;strong&gt;
&lt;a href=&#34;../../codigo-de-conducta/&#34;&gt;Code of Conduct&lt;/a&gt;&lt;/strong&gt;&lt;/h2&gt;
&lt;h2 id=&#34;sponsors&#34;&gt;&lt;strong&gt;Sponsors&lt;/strong&gt;&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;../../niveles-de-patrocinio/&#34;&gt;Become our &lt;strong&gt;sponsor&lt;/strong&gt;&lt;/a&gt;&lt;/p&gt;
&lt;h3 id=&#34;platinum-level&#34;&gt;Platinum level&lt;/h3&gt;
&lt;h3 id=&#34;gold-level&#34;&gt;Gold level&lt;/h3&gt;
&lt;h3 id=&#34;silver-level&#34;&gt;Silver level&lt;/h3&gt;
&lt;p&gt;
&lt;a href=&#34;http://bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://bioconductor.org/images/logo/jpg/bioconductor_logo_cmyk.jpg&#34; width=&#34;250px&#34;&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.r-consortium.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/RConsortium_Horizontal_Pantone-768x173.png&#34; width=&#34;250px&#34;&gt;&lt;/a&gt;&lt;/p&gt;
&lt;h2 id=&#34;organizers&#34;&gt;Organizers&lt;/h2&gt;
&lt;p&gt;CDSB is a node of the 
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network (RMB in Spanish)&lt;/a&gt; and jointly organizes the yearly workshop with the 
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Node of Bioinformatics (NNB)&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/TIB2020/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/TIF-Logo_2020.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/RMB_Logo-horizontal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/logo-principal.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.ccg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/CCG_Logo_HR.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;With support from:&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.lcg.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://www.nnb.unam.mx/TIB2020/wp-content/uploads/sites/2/2020/03/LCG_Logo_HR-white-e1522778427811.png&#34; width=&#34;250px&#34; /&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://www.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;https://www.zaragoza.unam.mx/portal/wp-content/Portal2015/Descargas/logo_unam_azul.jpg&#34; width=&#34;250px&#34;&gt;&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>From Bioconductor users to developers: our first community submission</title>
      <link>http://comunidadbioinfo.github.io/post/from-bioconductor-users-to-developers-our-first-community-submission/</link>
      <pubDate>Sat, 29 Feb 2020 17:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/from-bioconductor-users-to-developers-our-first-community-submission/</guid>
      <description>


&lt;script async class=&#34;speakerdeck-embed&#34; data-slide=&#34;14&#34; data-id=&#34;b9dd0405a013420682e7d850ab439326&#34; data-ratio=&#34;1.77777777777778&#34; src=&#34;//speakerdeck.com/assets/embed.js&#34;&gt;&lt;/script&gt;
&lt;p&gt;A couple years ago we started the Community of Bioinformatics Software Developers (CDSB in Spanish) as because we were concerned with the very low representation of Latin Americans in the Bioconductor community, and the R community in general. For the full story check this &lt;a href=&#34;https://comunidadbioinfo.github.io/post/a-recap-of-cdsb-2018-the-start-of-a-community/&#34;&gt;this blog post&lt;/a&gt;.&lt;/p&gt;
&lt;script async class=&#34;speakerdeck-embed&#34; data-slide=&#34;16&#34; data-id=&#34;b9dd0405a013420682e7d850ab439326&#34; data-ratio=&#34;1.77777777777778&#34; src=&#34;//speakerdeck.com/assets/embed.js&#34;&gt;&lt;/script&gt;
&lt;p&gt;Since we started CDSB, part of our goal been to help Bioconductor users transition into developers. To achieve this, we organized one week long courses in Mexico at low cost during the summers of &lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&#34;&gt;2018&lt;/a&gt; and &lt;a href=&#34;https://comunidadbioinfo.github.io/post/building-tidy-tools-cdsb-runconf-2019/&#34;&gt;2019&lt;/a&gt; in partnership with the &lt;a href=&#34;http://congresos.nnb.unam.mx/&#34;&gt;TIBs leadership (NNB-UNAM)&lt;/a&gt; and &lt;a href=&#34;https://redmexicanadebioinformatica.org/&#34;&gt;RMB&lt;/a&gt;. We plan to continue organizing these courses: except a 2020 announcement next week!&lt;/p&gt;
&lt;p&gt;While these workshops allow us to reach up to 40 students in person for a week, we have been borrowing methods from others to try to interact more frequently and help throughout this process &lt;a href=&#34;#fn1&#34; class=&#34;footnote-ref&#34; id=&#34;fnref1&#34;&gt;&lt;sup&gt;1&lt;/sup&gt;&lt;/a&gt;. But we now went a bit further.&lt;/p&gt;
&lt;p&gt;In 2018, CDSB students worked on R/Bioconductor packages for two days during our workshop. One of them, &lt;a href=&#34;https://josschavezf.github.io/&#34;&gt;Joselyn Chávez&lt;/a&gt;, picked up the &lt;a href=&#34;https://github.com/ComunidadBioInfo/regutools&#34;&gt;regutools&lt;/a&gt; project and continued working on it with advice from &lt;a href=&#34;http://comunidadbioinfo.github.io/authors/hsalgado&#34;&gt;Heladia Salgado&lt;/a&gt;. We eventually set up meetings where &lt;a href=&#34;http://alejandroreyes.org/&#34;&gt;Alejandro Reyes&lt;/a&gt; and &lt;a href=&#34;http://lcolladotor.github.io/&#34;&gt;myself&lt;/a&gt; would advice Joselyn, &lt;a href=&#34;http://comunidadbioinfo.github.io/authors/carbarjon&#34;&gt;Carmina Barberena-Jonas&lt;/a&gt; and &lt;a href=&#34;http://comunidadbioinfo.github.io/authors/jemilianosf/&#34;&gt;Jesus Emiliano Sotelo-Fonseca&lt;/a&gt; on how to best proceed.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;I just sent &lt;a href=&#34;https://twitter.com/Bioconductor?ref_src=twsrc%5Etfw&#34;&gt;@Bioconductor&lt;/a&gt;&amp;#39;s 2020 conf deadline reminders to &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/LieberInstitute?ref_src=twsrc%5Etfw&#34;&gt;@LieberInstitute&lt;/a&gt; &lt;a href=&#34;https://twitter.com/GenomicsAtJHU?ref_src=twsrc%5Etfw&#34;&gt;@GenomicsAtJHU&lt;/a&gt; &lt;a href=&#34;https://twitter.com/LatinR_Conf?ref_src=twsrc%5Etfw&#34;&gt;@LatinR_Conf&lt;/a&gt; &lt;a href=&#34;https://twitter.com/rOpenSci?ref_src=twsrc%5Etfw&#34;&gt;@rOpenSci&lt;/a&gt; &lt;a href=&#34;https://twitter.com/jhubiostat?ref_src=twsrc%5Etfw&#34;&gt;@jhubiostat&lt;/a&gt; 🗓️&lt;br&gt;&lt;br&gt;It&amp;#39;s the conf that started my &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; career &amp;amp; I highly recommend it!&lt;br&gt;&lt;br&gt;BioC usage intro &lt;a href=&#34;https://t.co/8NaV68vUsA&#34;&gt;https://t.co/8NaV68vUsA&lt;/a&gt;&lt;a href=&#34;https://t.co/ATzkKs7c04&#34;&gt;https://t.co/ATzkKs7c04&lt;/a&gt; &lt;a href=&#34;https://t.co/km8vRfyHcY&#34;&gt;pic.twitter.com/km8vRfyHcY&lt;/a&gt;&lt;/p&gt;&amp;mdash; 🇲🇽 Leonardo Collado-Torres (@lcolladotor) &lt;a href=&#34;https://twitter.com/lcolladotor/status/1230694883750445056?ref_src=twsrc%5Etfw&#34;&gt;February 21, 2020&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;We’ve known for months that the deadline for &lt;a href=&#34;https://bioc2020.bioconductor.org&#34;&gt;BioC2020&lt;/a&gt; talk/poster proposals was March 3rd. So we designed a plan that would allow them to submit &lt;a href=&#34;https://github.com/ComunidadBioInfo/regutools&#34;&gt;regutools&lt;/a&gt; prior to that deadline, then submit a proposal to present it (as well as submit proposals to present their own research projects) in order to increase their likelihood of getting a &lt;a href=&#34;https://bioc2020.bioconductor.org/scholarships.html&#34;&gt;BioC2020 travel scholarship&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;And we were able to accomplish this plan! Well, at least the part under their and our control. That is, check out the &lt;a href=&#34;https://github.com/Bioconductor/Contributions/issues/1393&#34;&gt;regutools Bioconductor submission&lt;/a&gt;. Thus we are incredibly excited to announce that the CDSB website now has a “Bioconductor Developers Alumni” section!&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/regutools/alumni.png&#34; alt=&#34;Bioconductor Developers Alumni&#34; /&gt;
We are also thrilled to announce that the &lt;a href=&#34;http://regulondb.ccg.unam.mx/&#34;&gt;RegulonDB&lt;/a&gt; team has given us the go ahead signal to write a manuscript about &lt;a href=&#34;https://github.com/ComunidadBioInfo/regutools&#34;&gt;regutools&lt;/a&gt;. So you’ll soon see a pre-print about it.&lt;/p&gt;
&lt;iframe src=&#34;https://giphy.com/embed/WsKVAem02Efuw&#34; width=&#34;480&#34; height=&#34;455&#34; frameBorder=&#34;0&#34; class=&#34;giphy-embed&#34; allowFullScreen&gt;
&lt;/iframe&gt;
&lt;p&gt;
&lt;a href=&#34;https://giphy.com/gifs/dancing-happy-excited-WsKVAem02Efuw&#34;&gt;via GIPHY&lt;/a&gt;
&lt;/p&gt;
&lt;p&gt;Though I personally really hope that Joselyn, Carmina, Emiliano and many other CDSB alumni will be able to go to BioC2020 and other R conferences.&lt;/p&gt;
&lt;p&gt;We couldn’t have gotten this far without all the support we’ve received over the years. So I would like to thank all our previous sponsors &lt;a href=&#34;#fn2&#34; class=&#34;footnote-ref&#34; id=&#34;fnref2&#34;&gt;&lt;sup&gt;2&lt;/sup&gt;&lt;/a&gt;, colleagues who’ve encouraged us to keep going, and CDSB alumni like Joselyn, Carmina, and Emiliano who believed in our ideas and spent their own time making them a reality.&lt;/p&gt;
&lt;iframe src=&#34;https://giphy.com/embed/yoJC2El7xJkYCadlWE&#34; width=&#34;480&#34; height=&#34;294&#34; frameBorder=&#34;0&#34; class=&#34;giphy-embed&#34; allowFullScreen&gt;
&lt;/iframe&gt;
&lt;p&gt;
&lt;a href=&#34;https://giphy.com/gifs/kiss-brad-pitt-thank-you-yoJC2El7xJkYCadlWE&#34;&gt;via GIPHY&lt;/a&gt;
&lt;/p&gt;
&lt;p&gt;I leave you here with a short introduction to &lt;a href=&#34;https://github.com/ComunidadBioInfo/regutools&#34;&gt;regutools&lt;/a&gt;.&lt;/p&gt;
&lt;div id=&#34;regutools&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;regutools &lt;img src=&#34;https://comunidadbioinfo.github.io/regutools/reference/figures/logo.png&#34; align=&#34;right&#34; width=&#34;250px&#34;/&gt;&lt;/h3&gt;
&lt;p&gt;The goal of &lt;code&gt;regutools&lt;/code&gt; is to provide an R interface for extracting and processing data from &lt;a href=&#34;http://regulondb.ccg.unam.mx/&#34;&gt;RegulonDB&lt;/a&gt;. This package was created as a collaboration by members of the &lt;a href=&#34;https://comunidadbioinfo.github.io/&#34;&gt;Community of Bioinformatics Software Developers&lt;/a&gt; (CDSB in Spanish).&lt;/p&gt;
&lt;p&gt;For more details, please check the &lt;a href=&#34;http://comunidadbioinfo.github.io/regutools&#34;&gt;documentation website&lt;/a&gt; or the Bioconductor package landing page &lt;a href=&#34;https://bioconductor.org/packages/regutools&#34;&gt;here&lt;/a&gt;.&lt;/p&gt;
&lt;div id=&#34;installation&#34; class=&#34;section level4&#34;&gt;
&lt;h4&gt;Installation&lt;/h4&gt;
&lt;p&gt;You can install the released version of &lt;code&gt;regutools&lt;/code&gt; from &lt;a href=&#34;http://bioconductor.org/&#34;&gt;Bioconductor&lt;/a&gt; with:&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;if (!requireNamespace(&amp;quot;BiocManager&amp;quot;, quietly = TRUE))
    install.packages(&amp;quot;BiocManager&amp;quot;)

BiocManager::install(&amp;quot;regutools&amp;quot;)

## Check that you have a valid Bioconductor installation
BiocManager::valid()&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;And the development version from &lt;a href=&#34;https://github.com/&#34;&gt;GitHub&lt;/a&gt; with:&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;## Since the package is currently going through the Bioconductor
## revision process, you need to use this code instead:
BiocManager::install(&amp;quot;ComunidadBioinfo/regutools&amp;quot;)&lt;/code&gt;&lt;/pre&gt;
&lt;/div&gt;
&lt;div id=&#34;example&#34; class=&#34;section level4&#34;&gt;
&lt;h4&gt;Example&lt;/h4&gt;
&lt;p&gt;This is a basic example which shows you how to use &lt;code&gt;regutools&lt;/code&gt;. For more details, please check the vignette.&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;library(&amp;#39;regutools&amp;#39;)
## basic example code

## Connect to the RegulonDB database if necessary
if(!exists(&amp;#39;regulondb_conn&amp;#39;)) regulondb_conn &amp;lt;- connect_database()&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## snapshotDate(): 2019-10-29&lt;/code&gt;&lt;/pre&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;## Build a regulondb object
e_coli_regulondb &amp;lt;-
    regulondb(
        database_conn = regulondb_conn,
        organism = &amp;quot;E.coli&amp;quot;,
        database_version = &amp;quot;1&amp;quot;,
        genome_version = &amp;quot;1&amp;quot;
    )

## Get the araC regulators
araC_regulation &amp;lt;-
    get_gene_regulators(
        e_coli_regulondb,
        genes = c(&amp;quot;araC&amp;quot;),
        format = &amp;quot;multirow&amp;quot;,
        output.type = &amp;quot;TF&amp;quot;
    )

## Summarize the araC regulation
get_regulatory_summary(e_coli_regulondb, araC_regulation)&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## regulondb_result with 3 rows and 7 columns
##         TF Regulated_genes_per_TF          Percent Activator Repressor     Dual
##   &amp;lt;factor&amp;gt;               &amp;lt;factor&amp;gt;         &amp;lt;factor&amp;gt;  &amp;lt;factor&amp;gt;  &amp;lt;factor&amp;gt; &amp;lt;factor&amp;gt;
## 1     AraC                      1 33.3333333333333         0         0        1
## 2      CRP                      1 33.3333333333333         1         0        0
## 3     XylR                      1 33.3333333333333         0         1        0
##   Regulated_genes
##          &amp;lt;factor&amp;gt;
## 1            araC
## 2            araC
## 3            araC&lt;/code&gt;&lt;/pre&gt;
&lt;/div&gt;
&lt;div id=&#34;citation&#34; class=&#34;section level4&#34;&gt;
&lt;h4&gt;Citation&lt;/h4&gt;
&lt;p&gt;Below is the citation output from using &lt;code&gt;citation(&#39;regutools&#39;)&lt;/code&gt; in R. Please
run this yourself to check for any updates on how to cite &lt;strong&gt;regutools&lt;/strong&gt;.&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;citation(&amp;#39;regutools&amp;#39;)&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## 
## Chávez J, Barberena-Jonas C, Sotelo-Fonseca JE, Alquicira-Hernandez J,
## Salgado H, Collado-Torres L, Reyes A (2020). _regutools: an R package
## for data extraction from RegulonDB_. doi: 10.18129/B9.bioc.regutools
## (URL: https://doi.org/10.18129/B9.bioc.regutools),
## https://github.com/comunidadbioinfo/regutools - R package version
## 0.99.0, &amp;lt;URL: http://www.bioconductor.org/packages/regutools&amp;gt;.
## 
## Chávez J, Barberena-Jonas C, Sotelo-Fonseca JE, Alquicira-Hernandez J,
## Salgado H, Collado-Torres L, Reyes A (2020). &amp;quot;Programmatic access to
## bacterial regulatory networks with regutools.&amp;quot; _bioRxiv_. doi:
## 10.1101/xxxyyy (URL: https://doi.org/10.1101/xxxyyy), &amp;lt;URL:
## https://doi.org/10.1101/xxxyyy&amp;gt;.
## 
## To see these entries in BibTeX format, use &amp;#39;print(&amp;lt;citation&amp;gt;,
## bibtex=TRUE)&amp;#39;, &amp;#39;toBibtex(.)&amp;#39;, or set
## &amp;#39;options(citation.bibtex.max=999)&amp;#39;.&lt;/code&gt;&lt;/pre&gt;
&lt;/div&gt;
&lt;/div&gt;
&lt;div id=&#34;reproducibility-information&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;Reproducibility information&lt;/h3&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;options(width = 120)
sessioninfo::session_info()&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## ─ Session info ───────────────────────────────────────────────────────────────────────────────────────────────────────
##  setting  value                       
##  version  R version 3.6.2 (2019-12-12)
##  os       macOS Catalina 10.15.2      
##  system   x86_64, darwin15.6.0        
##  ui       X11                         
##  language (EN)                        
##  collate  en_US.UTF-8                 
##  ctype    en_US.UTF-8                 
##  tz       America/New_York            
##  date     2020-02-29                  
## 
## ─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────────────────
##  package                * version  date       lib source                                     
##  acepack                  1.4.1    2016-10-29 [1] CRAN (R 3.6.0)                             
##  AnnotationDbi            1.48.0   2019-10-29 [1] Bioconductor                               
##  AnnotationFilter         1.10.0   2019-10-29 [1] Bioconductor                               
##  AnnotationHub            2.18.0   2019-10-29 [1] Bioconductor                               
##  askpass                  1.1      2019-01-13 [1] CRAN (R 3.6.0)                             
##  assertthat               0.2.1    2019-03-21 [1] CRAN (R 3.6.0)                             
##  backports                1.1.5    2019-10-02 [1] CRAN (R 3.6.0)                             
##  base64enc                0.1-3    2015-07-28 [1] CRAN (R 3.6.0)                             
##  Biobase                  2.46.0   2019-10-29 [1] Bioconductor                               
##  BiocFileCache            1.10.2   2019-11-08 [1] Bioconductor                               
##  BiocGenerics             0.32.0   2019-10-29 [1] Bioconductor                               
##  BiocManager              1.30.10  2019-11-16 [1] CRAN (R 3.6.1)                             
##  BiocParallel             1.20.1   2019-12-21 [1] Bioconductor                               
##  BiocVersion              3.10.1   2019-06-06 [1] Bioconductor                               
##  biomaRt                  2.42.0   2019-10-29 [1] Bioconductor                               
##  Biostrings               2.54.0   2019-10-29 [1] Bioconductor                               
##  biovizBase               1.34.1   2019-12-04 [1] Bioconductor                               
##  bit                      1.1-15.2 2020-02-10 [1] CRAN (R 3.6.0)                             
##  bit64                    0.9-7    2017-05-08 [1] CRAN (R 3.6.0)                             
##  bitops                   1.0-6    2013-08-17 [1] CRAN (R 3.6.0)                             
##  blob                     1.2.1    2020-01-20 [1] CRAN (R 3.6.0)                             
##  blogdown                 0.17     2019-11-13 [1] CRAN (R 3.6.1)                             
##  bookdown                 0.17     2020-01-11 [1] CRAN (R 3.6.0)                             
##  BSgenome                 1.54.0   2019-10-29 [1] Bioconductor                               
##  checkmate                1.9.4    2019-07-04 [1] CRAN (R 3.6.0)                             
##  cli                      2.0.1    2020-01-08 [1] CRAN (R 3.6.0)                             
##  cluster                  2.1.0    2019-06-19 [1] CRAN (R 3.6.2)                             
##  colorout               * 1.2-1    2019-05-07 [1] Github (jalvesaq/colorout@7ea9440)         
##  colorspace               1.4-1    2019-03-18 [1] CRAN (R 3.6.0)                             
##  crayon                   1.3.4    2017-09-16 [1] CRAN (R 3.6.0)                             
##  curl                     4.3      2019-12-02 [1] CRAN (R 3.6.0)                             
##  data.table               1.12.8   2019-12-09 [1] CRAN (R 3.6.1)                             
##  DBI                      1.1.0    2019-12-15 [1] CRAN (R 3.6.0)                             
##  dbplyr                   1.4.2    2019-06-17 [1] CRAN (R 3.6.0)                             
##  DelayedArray             0.12.2   2020-01-06 [1] Bioconductor                               
##  dichromat                2.0-0    2013-01-24 [1] CRAN (R 3.6.0)                             
##  digest                   0.6.25   2020-02-23 [1] CRAN (R 3.6.0)                             
##  dplyr                    0.8.4    2020-01-31 [1] CRAN (R 3.6.0)                             
##  ensembldb                2.10.2   2019-11-20 [1] Bioconductor                               
##  evaluate                 0.14     2019-05-28 [1] CRAN (R 3.6.0)                             
##  fansi                    0.4.1    2020-01-08 [1] CRAN (R 3.6.0)                             
##  fastmap                  1.0.1    2019-10-08 [1] CRAN (R 3.6.0)                             
##  foreign                  0.8-75   2020-01-20 [1] CRAN (R 3.6.0)                             
##  Formula                  1.2-3    2018-05-03 [1] CRAN (R 3.6.0)                             
##  GenomeInfoDb             1.22.0   2019-10-29 [1] Bioconductor                               
##  GenomeInfoDbData         1.2.2    2019-10-31 [1] Bioconductor                               
##  GenomicAlignments        1.22.1   2019-11-12 [1] Bioconductor                               
##  GenomicFeatures          1.38.1   2020-01-22 [1] Bioconductor                               
##  GenomicRanges            1.38.0   2019-10-29 [1] Bioconductor                               
##  ggplot2                  3.2.1    2019-08-10 [1] CRAN (R 3.6.0)                             
##  glue                     1.3.1    2019-03-12 [1] CRAN (R 3.6.0)                             
##  graph                    1.64.0   2019-10-29 [1] Bioconductor                               
##  gridExtra                2.3      2017-09-09 [1] CRAN (R 3.6.0)                             
##  gtable                   0.3.0    2019-03-25 [1] CRAN (R 3.6.0)                             
##  Gviz                     1.30.1   2020-01-23 [1] Bioconductor                               
##  Hmisc                    4.3-0    2019-11-07 [1] CRAN (R 3.6.0)                             
##  hms                      0.5.3    2020-01-08 [1] CRAN (R 3.6.0)                             
##  htmlTable                1.13.3   2019-12-04 [1] CRAN (R 3.6.1)                             
##  htmltools                0.4.0    2019-10-04 [1] CRAN (R 3.6.0)                             
##  htmlwidgets              1.5.1    2019-10-08 [1] CRAN (R 3.6.0)                             
##  httpuv                   1.5.2    2019-09-11 [1] CRAN (R 3.6.0)                             
##  httr                     1.4.1    2019-08-05 [1] CRAN (R 3.6.0)                             
##  igraph                   1.2.4.2  2019-11-27 [1] CRAN (R 3.6.0)                             
##  interactiveDisplayBase   1.24.0   2019-10-29 [1] Bioconductor                               
##  IRanges                  2.20.2   2020-01-13 [1] Bioconductor                               
##  jpeg                     0.1-8.1  2019-10-24 [1] CRAN (R 3.6.1)                             
##  knitr                    1.27     2020-01-16 [1] CRAN (R 3.6.0)                             
##  later                    1.0.0    2019-10-04 [1] CRAN (R 3.6.0)                             
##  lattice                  0.20-38  2018-11-04 [1] CRAN (R 3.6.2)                             
##  latticeExtra             0.6-29   2019-12-19 [1] CRAN (R 3.6.0)                             
##  lazyeval                 0.2.2    2019-03-15 [1] CRAN (R 3.6.0)                             
##  lifecycle                0.1.0    2019-08-01 [1] CRAN (R 3.6.0)                             
##  magrittr                 1.5      2014-11-22 [1] CRAN (R 3.6.0)                             
##  Matrix                   1.2-18   2019-11-27 [1] CRAN (R 3.6.2)                             
##  matrixStats              0.55.0   2019-09-07 [1] CRAN (R 3.6.0)                             
##  memoise                  1.1.0    2017-04-21 [1] CRAN (R 3.6.0)                             
##  mime                     0.9      2020-02-04 [1] CRAN (R 3.6.0)                             
##  munsell                  0.5.0    2018-06-12 [1] CRAN (R 3.6.0)                             
##  nnet                     7.3-12   2016-02-02 [1] CRAN (R 3.6.2)                             
##  openssl                  1.4.1    2019-07-18 [1] CRAN (R 3.6.0)                             
##  pillar                   1.4.3    2019-12-20 [1] CRAN (R 3.6.0)                             
##  pkgconfig                2.0.3    2019-09-22 [1] CRAN (R 3.6.1)                             
##  png                      0.1-7    2013-12-03 [1] CRAN (R 3.6.0)                             
##  prettyunits              1.1.1    2020-01-24 [1] CRAN (R 3.6.2)                             
##  progress                 1.2.2    2019-05-16 [1] CRAN (R 3.6.0)                             
##  promises                 1.1.0    2019-10-04 [1] CRAN (R 3.6.0)                             
##  ProtGenerics             1.18.0   2019-10-29 [1] Bioconductor                               
##  purrr                    0.3.3    2019-10-18 [1] CRAN (R 3.6.0)                             
##  R.methodsS3              1.7.1    2016-02-16 [1] CRAN (R 3.6.0)                             
##  R.oo                     1.23.0   2019-11-03 [1] CRAN (R 3.6.0)                             
##  R.utils                  2.9.2    2019-12-08 [1] CRAN (R 3.6.1)                             
##  R6                       2.4.1    2019-11-12 [1] CRAN (R 3.6.1)                             
##  rappdirs                 0.3.1    2016-03-28 [1] CRAN (R 3.6.0)                             
##  RColorBrewer             1.1-2    2014-12-07 [1] CRAN (R 3.6.0)                             
##  Rcpp                     1.0.3    2019-11-08 [1] CRAN (R 3.6.0)                             
##  RCurl                    1.98-1.1 2020-01-19 [1] CRAN (R 3.6.0)                             
##  RCy3                     2.6.3    2020-01-12 [1] Bioconductor                               
##  regutools              * 0.99.0   2020-02-29 [1] Github (comunidadbioinfo/regutools@0cb5b18)
##  RJSONIO                  1.3-1.4  2020-01-15 [1] CRAN (R 3.6.0)                             
##  rlang                    0.4.4    2020-01-28 [1] CRAN (R 3.6.0)                             
##  rmarkdown                2.1      2020-01-20 [1] CRAN (R 3.6.0)                             
##  rpart                    4.1-15   2019-04-12 [1] CRAN (R 3.6.2)                             
##  Rsamtools                2.2.1    2019-11-06 [1] Bioconductor                               
##  RSQLite                  2.2.0    2020-01-07 [1] CRAN (R 3.6.0)                             
##  rstudioapi               0.11     2020-02-07 [1] CRAN (R 3.6.0)                             
##  rtracklayer              1.46.0   2019-10-29 [1] Bioconductor                               
##  S4Vectors                0.24.3   2020-01-18 [1] Bioconductor                               
##  scales                   1.1.0    2019-11-18 [1] CRAN (R 3.6.1)                             
##  sessioninfo              1.1.1    2018-11-05 [1] CRAN (R 3.6.0)                             
##  shiny                    1.4.0    2019-10-10 [1] CRAN (R 3.6.0)                             
##  stringi                  1.4.6    2020-02-17 [1] CRAN (R 3.6.0)                             
##  stringr                  1.4.0    2019-02-10 [1] CRAN (R 3.6.0)                             
##  SummarizedExperiment     1.16.1   2019-12-19 [1] Bioconductor                               
##  survival                 3.1-8    2019-12-03 [1] CRAN (R 3.6.2)                             
##  tibble                   2.1.3    2019-06-06 [1] CRAN (R 3.6.0)                             
##  tidyselect               1.0.0    2020-01-27 [1] CRAN (R 3.6.0)                             
##  VariantAnnotation        1.32.0   2019-10-29 [1] Bioconductor                               
##  vctrs                    0.2.3    2020-02-20 [1] CRAN (R 3.6.0)                             
##  withr                    2.1.2    2018-03-15 [1] CRAN (R 3.6.0)                             
##  xfun                     0.12     2020-01-13 [1] CRAN (R 3.6.0)                             
##  XML                      3.99-0.3 2020-01-20 [1] CRAN (R 3.6.0)                             
##  xtable                   1.8-4    2019-04-21 [1] CRAN (R 3.6.0)                             
##  XVector                  0.26.0   2019-10-29 [1] Bioconductor                               
##  yaml                     2.2.1    2020-02-01 [1] CRAN (R 3.6.0)                             
##  zlibbioc                 1.32.0   2019-10-29 [1] Bioconductor                               
## 
## [1] /Library/Frameworks/R.framework/Versions/3.6/Resources/library&lt;/code&gt;&lt;/pre&gt;
&lt;/div&gt;
&lt;div class=&#34;footnotes&#34;&gt;
&lt;hr /&gt;
&lt;ol&gt;
&lt;li id=&#34;fn1&#34;&gt;&lt;p&gt;As always, thank you &lt;a href=&#34;https://unconf18.ropensci.org/&#34;&gt;rOpenSci unconf 2018&lt;/a&gt;!&lt;a href=&#34;#fnref1&#34; class=&#34;footnote-back&#34;&gt;↩︎&lt;/a&gt;&lt;/p&gt;&lt;/li&gt;
&lt;li id=&#34;fn2&#34;&gt;&lt;p&gt;Sponsors are listed on each year’s workshop announcement. If you would like to sponsor our 2020 workshop, please get in touch with us. Thanks!!&lt;a href=&#34;#fnref2&#34; class=&#34;footnote-back&#34;&gt;↩︎&lt;/a&gt;&lt;/p&gt;&lt;/li&gt;
&lt;/ol&gt;
&lt;/div&gt;
</description>
    </item>
    
    <item>
      <title>CDSB Workshop 2019: How to Build and Create Tidy Tools</title>
      <link>http://comunidadbioinfo.github.io/post/building-tidy-tools-cdsb-runconf-2019/</link>
      <pubDate>Fri, 05 Apr 2019 13:30:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/building-tidy-tools-cdsb-runconf-2019/</guid>
      <description>&lt;h4 id=&#34;community-of-bioinformatics-software-developers&#34;&gt;Community of Bioinformatics Software Developers&lt;/h4&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;Workshop webpage: 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/building-tidy-tools-CDSB-runconf-2019/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://comunidadbioinfo.github.io/post/building-tidy-tools-CDSB-runconf-2019/&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Level: &lt;strong&gt;intermediate - advanced&lt;/strong&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Language: &lt;strong&gt;Spanish&lt;/strong&gt;^[If you speak English but not Spanish please let us know so we can plan accordingly.]&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;When: July 29 - August 2, 2019&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Where: Auditorium of the 
&lt;a href=&#34;http://www.ccg.unam.mx/en&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Center for Genomic Sciences&lt;/a&gt;, Cuernavaca, Mexico&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Twitter: 
&lt;a href=&#34;https://twitter.com/search?f=tweets&amp;amp;q=%23CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Facebook: 
&lt;a href=&#34;https://www.facebook.com/CDSBMexico/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;GitHub: 
&lt;a href=&#34;https://github.com/ComunidadBioInfo/tidy-tools-CDSB-runconf-2019&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://github.com/ComunidadBioInfo/tidy-tools-CDSB-runconf-2019&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/registro/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Registration&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;requirements&#34;&gt;Requirements&lt;/h2&gt;
&lt;p&gt;Requirements prior knowledge&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Participants should have basic to intermediate knowledge of the R programming language: variable assignment, reading files: read.csv, read.delim, read.table; data structures: matrix, dataframe, list; data types: character, numeric, factor, logical, etc; installation and use of packages.&lt;/li&gt;
&lt;li&gt;R: know how to install packages&lt;/li&gt;
&lt;li&gt;RStudio: know how to use.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Technical requirements&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Personal computer. Minimum 8GB RAM, a mouse and sufficient disk space for text files and image files. Administrator privileges to install and run utilities such as RStudio.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;overview&#34;&gt;Overview&lt;/h2&gt;
&lt;p&gt;In recent years, 
&lt;a href=&#34;https://cran.r-project.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R&lt;/a&gt; has become one of the most used programming languages for data science. The explosion in data available in many fields has increased the demand for data analysts, which is the case in Bioinformatics. &lt;code&gt;R&lt;/code&gt; users start by learning how to use the tools others have openly shared with the international community. These &lt;code&gt;R&lt;/code&gt; users acquire skills as they continue to analyze data and might even start to interact with &lt;code&gt;R&lt;/code&gt; software developers through community websites such as 
&lt;a href=&#34;https://community.rstudio.com/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;RStudio Community&lt;/a&gt;, 
&lt;a href=&#34;https://support.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor Support&lt;/a&gt; or via Twitter using the 
&lt;a href=&#34;https://twitter.com/search?q=%23rstats&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#rstats hashtag&lt;/a&gt;. Eventually some &lt;code&gt;R&lt;/code&gt; users will want to write their own functions and share them online with others. They can do so via creating their own &lt;code&gt;R&lt;/code&gt; packages and sharing them via repositories likes 
&lt;a href=&#34;https://cran.r-project.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CRAN&lt;/a&gt; and 
&lt;a href=&#34;http://bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor&lt;/a&gt; or simply via 
&lt;a href=&#34;https://github.com&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;GitHub&lt;/a&gt;. In this workshop participants will work through the &lt;em&gt;Building Tidy Tools&lt;/em&gt; 
&lt;a href=&#34;https://blog.rstudio.com/2019/02/06/rstudio-conf-2019-workshops/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rstudio::conf 2019 workshop&lt;/a&gt; and then build their own &lt;code&gt;R&lt;/code&gt; packages by collaborating with each other, similar to what was done at 
&lt;a href=&#34;http://unconf18.ropensci.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci unconf18&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;This workshop is aimed at students and researchers interested in data analysis that have experience using R. We encourage applications from experts in diverse disciplines, including but not limited to biologists, bioinformaticians, data scientists, software engineers and programmers and R users at large. The main goals of the workshop are:&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;
&lt;p&gt;Teach participants the principles of reproducible data science through the development of R/Bioconductor packages.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Turn (bioinformatics) software users into (bioinformatics) software developers.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Foster the exchange of expertise and establish multidisciplinary collaborations.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Create a community of Latin American scientists committed to the development of software and computational pipelines for (biological) data analysis.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Help train users that can become local instructors and continue to grow their local communities.&lt;/p&gt;
&lt;/li&gt;
&lt;/ol&gt;
&lt;p&gt;This workshop is part of a long-term project to create a community of developers from Latin America. We hope to hold regular meetings in the future (similar to BioC, EuroBioc and BioCAsia) where attendees present their own software contributions. To provide a welcoming environment please follow our 
&lt;a href=&#34;../../codigo-de-conducta/&#34;&gt;code of conduct&lt;/a&gt;.&lt;/p&gt;
&lt;h2 id=&#34;program&#34;&gt;Program&lt;/h2&gt;
&lt;p&gt;Overall TIB2019 program (registration, sessions and breaks) is available 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/programa/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;here&lt;/a&gt;.&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;&lt;strong&gt;Day 1: July 29, 2019&lt;/strong&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;08:00-09:00&lt;/td&gt;
&lt;td&gt;Registration&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:00-09:30&lt;/td&gt;
&lt;td&gt;TIB2019 Inauguration&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:30-10:00&lt;/td&gt;
&lt;td&gt;Welcome to CDSB: the history of our community and where we are going. Code of conduct review&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00-10:30&lt;/td&gt;
&lt;td&gt;Why make an R package?&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30-11:00&lt;/td&gt;
&lt;td&gt;Preliminaries&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00-11:30&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30-12:30&lt;/td&gt;
&lt;td&gt;Packages&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:30-14:00&lt;/td&gt;
&lt;td&gt;Testing&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00-15:30&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30-17:30&lt;/td&gt;
&lt;td&gt;API Design&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;17:30-18:30&lt;/td&gt;
&lt;td&gt;Welcome cocktail&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 2: July 30, 2019&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:00-11:00&lt;/td&gt;
&lt;td&gt;Functional Programing&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00-11:30&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30-14:00&lt;/td&gt;
&lt;td&gt;Errors&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00-15:30&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30-17:30&lt;/td&gt;
&lt;td&gt;Object Oriented Programming&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 3: July 31, 2019&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:00-11:00&lt;/td&gt;
&lt;td&gt;Tidy Evaluation&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00-11:30&lt;/td&gt;
&lt;td&gt;Group picture&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30-12:00&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:00-14:00&lt;/td&gt;
&lt;td&gt;Document and Share&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00-15:30&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30-17:30&lt;/td&gt;
&lt;td&gt;Introduction to GitHub&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 4: August 1, 2019&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:00-09:30&lt;/td&gt;
&lt;td&gt;Introduction to &lt;code&gt;runconf&lt;/code&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:30-11:00&lt;/td&gt;
&lt;td&gt;Community building activities&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00-11:30&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30-12:00&lt;/td&gt;
&lt;td&gt;Voting and selection of projects to work on&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:00-14:00&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; and 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mteresa&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00-15:30&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30-17:30&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; and 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mteresa&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 5: August 2, 2019&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:00-09:15&lt;/td&gt;
&lt;td&gt;(optional) change project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;09:15-11:00&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;, 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; and 
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mteresa&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00-11:30&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30-12:00&lt;/td&gt;
&lt;td&gt;Workshop evaluation&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:00-12:30&lt;/td&gt;
&lt;td&gt;Prepare presentations of the collaborative project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:30-13:00&lt;/td&gt;
&lt;td&gt;Presentations of collaborative projects&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;13:00-13:30&lt;/td&gt;
&lt;td&gt;Closing remarks and community participation opportunities&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;13:30-14:00&lt;/td&gt;
&lt;td&gt;TIB2019 Closing Ceremony&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h3 id=&#34;building-tidy-tools&#34;&gt;Building Tidy Tools&lt;/h3&gt;
&lt;p&gt;Charlotte Wickham and Hadley Wickham were the instructors of the 
&lt;a href=&#34;https://github.com/rstudio/rstudio-conf/blob/master/2019/workshops.md#building-tidy-tools&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;original version of this workshop&lt;/a&gt; at rstudio::conf 2019. They have kindly shared their materials with us, which we will translate to Spanish.&lt;/p&gt;
&lt;blockquote&gt;
&lt;p&gt;This is a two-day hands on workshop for those who have embraced the tidyverse and now want to expand it to meet their own needs. We&amp;rsquo;ll discuss API design, functional programming tools, the basics of object design in S3, and the tidy eval system for NSE.&lt;/p&gt;
&lt;p&gt;Learn efficient workflows for developing high-quality R functions, using the set of conventions codified by a package. You&amp;rsquo;ll also learn workflows for unit testing, which helps ensure that your functions do exactly what you think they do. Master the art of writing functions that do one thing well and can be fluently combined together to solve more complex problems.We&amp;rsquo;ll cover common function writing pitfalls and how to avoid them.&lt;/p&gt;
&lt;p&gt;Learn how to write collections of functions that work well together, and adhere to existing conventions so they&amp;rsquo;re easy to pick up for newcomers.&lt;/p&gt;
&lt;p&gt;You should take this workshop if you have experience programming in R and want to learn how to tackle larger scale problems. You&amp;rsquo;ll get the most from it if you&amp;rsquo;re already familiar with functions and are comfortable with R’s basic data structures (vectors, matrices, arrays, lists, and data frames).&lt;/p&gt;
&lt;/blockquote&gt;
&lt;p&gt;Instead of two days, we will teach this workshop in two and a half days such that we can give you more time to digest the material and work through an introduction to Git and GitHub.&lt;/p&gt;
&lt;h3 id=&#34;cdsb-runconf&#34;&gt;CDSB &lt;code&gt;runconf&lt;/code&gt;&lt;/h3&gt;
&lt;p&gt;&lt;code&gt;R&lt;/code&gt; unconference events (runconf) typically involve two stages and an optional third one. First, participants create issues weeks ahead of the runconf where they share ideas that they can work through in collaboration with others during the two days of the runconf. In the second stage, participants meet each other and get to know each other through some icebreakers. They then work together for two days on the projects that received the most votes. This is where participants get to learn skills from each other and get a taste of developing open source software in a collaborative environment. At the end, everyone shares their work with the whole group. In the third and final stage, runconf attendees might continue to interact with each other to further polish the packages they worked on during the runconf event, start new collaborations and/or write blog posts about their experience.&lt;/p&gt;
&lt;p&gt;There are many blog posts about rOpenSci unconf events. A recent runconf was the &lt;code&gt;chirunconf&lt;/code&gt; which you can read more about on this blog post by 
&lt;a href=&#34;https://sharla.party/posts/chirunconf/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Sharla Gelfand&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;If you are attending our workshop, we will ask you to propose at least one R package idea by creating a GitHub Issue in our 
&lt;a href=&#34;https://github.com/ComunidadBioInfo/tidy-tools-CDSB-runconf-2019/issues&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;GitHub repository for the workshop&lt;/a&gt;. If you want some inspiration, take a look at 
&lt;a href=&#34;https://github.com/ropensci/unconf18/issues&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci unconf18&lt;/a&gt;&amp;rsquo;s GitHub repository. You will need to get familiarized with all the proposal before the workshop starts.&lt;/p&gt;
&lt;h2 id=&#34;instructors&#34;&gt;Instructors:&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt; (International Laboratory for Human Genome Research, Juriquilla, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; (Dana-Farber Cancer Institute, Boston, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; (Lieber Institute for Brain Development, Baltimore, USA). Leonardo attended 
&lt;a href=&#34;https://blog.rstudio.com/2019/02/06/rstudio-conf-2019-workshops/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rstudio::conf 2019&lt;/a&gt; thanks to a diversity scholarship where he took the original &lt;em&gt;Building Tidy Tools&lt;/em&gt; workshop. He also attended 
&lt;a href=&#34;http://unconf18.ropensci.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rOpenSci unconf 2018&lt;/a&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/mteresa/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Maria Teresa Ortiz&lt;/a&gt; (CONABIO and ITAM, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;organizing-committee&#34;&gt;Organizing committee:&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt; (International Laboratory for Human Genome Research, Juriquilla, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; (Dana-Farber Cancer Institute, Boston, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/delfinog/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Delfino García&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/hsalgado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Heladia Salgado&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://comunidadbioinfo.github.io/authors/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; (Lieber Institute for Brain Development, Baltimore, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;code-of-conductcodigo-de-conducta&#34;&gt;
&lt;a href=&#34;../../codigo-de-conducta/&#34;&gt;Code of Conduct&lt;/a&gt;&lt;/h2&gt;
&lt;h2 id=&#34;sponsors&#34;&gt;Sponsors&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;../../niveles-de-patrocinio/&#34;&gt;Become our &lt;strong&gt;sponsor&lt;/strong&gt;&lt;/a&gt;&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.ccg.unam.mx&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/CCG_Logo_HR-300x114.png&#34; alt=&#34;Centro de Ciencias Genómicas UNAM&#34;&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.lcg.unam.mx&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/LCG_Logo_HR-white.png&#34; alt=&#34;&#34;&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://liigh.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/logo-liigh-unam.png&#34; alt=&#34;&#34;&gt;&lt;/a&gt;&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.r-consortium.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/RConsortium_Horizontal_Pantone-768x173.png&#34; alt=&#34;&#34;&gt;&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
</description>
    </item>
    
    <item>
      <title>Bioinformatics Mexican Meeting 2019</title>
      <link>http://comunidadbioinfo.github.io/post/talleres-internacionales-de-bioinformatica-2019/</link>
      <pubDate>Fri, 05 Apr 2019 12:00:00 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/talleres-internacionales-de-bioinformatica-2019/</guid>
      <description>&lt;p&gt;The National Node of Bioinformatics (NNB-UNAM), the Mexican Bioinformatics Network (RMB) and the Community of Bioinformatics Software Developers (CDSB) invite you to &lt;strong&gt;Bioinformatics Mexican Meeting 2019&lt;/strong&gt; composed by&lt;/p&gt;
&lt;h3 id=&#34;international-bioinformatics-workshops-tib2019&#34;&gt;International Bioinformatics Workshops (TIB2019)&lt;/h3&gt;
&lt;p&gt;&amp;amp;&lt;/p&gt;
&lt;h3 id=&#34;cdsb-workshop-how-to-build-and-create-tidy-tools&#34;&gt;CDSB Workshop: How To Build and Create Tidy Tools&lt;/h3&gt;
&lt;p&gt;&lt;strong&gt;UNAM Center for Genomic Sciences (CCG-UNAM) in Cuernavaca Morelos, Mexico.&lt;/strong&gt;
&lt;strong&gt;From July 29 to August 9, 2019&lt;/strong&gt;&lt;/p&gt;
&lt;p&gt;The workshops are organized by:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;NNB-UNAM, Mexican node EMBNet (European Molecular Biology network)&lt;/li&gt;
&lt;li&gt;Community of Bioinformatics Software Developers (CDSB)&lt;/li&gt;
&lt;li&gt;Mexican Bioinformatics Network (RMB)&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;thanks to the:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Center for Genomic Sciences (CCG-UNAM)&lt;/li&gt;
&lt;li&gt;Undergrad on Genomic Sciences (LCG-UNAM)&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;For information on how to register, check the 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;TIB2019 website&lt;/a&gt;.&lt;/p&gt;
&lt;h4 id=&#34;workshops&#34;&gt;Workshops&lt;/h4&gt;
&lt;p&gt;Each workshop is a week long.&lt;/p&gt;
&lt;p&gt;&lt;strong&gt;From July 29 to August 2, 2019&lt;/strong&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/t1-introduccion-a-r-y-r-studio&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T1: Introduction workshop R and RStudio&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/t2-introduccion-al-ensamble-y-anotacion-de-genomas/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T2. Introduction to Genome Assembly and Annotation&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/t3-analisis-comparativo-de-genomas-microbianos-pangenomica-y-filoinformatica/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T3. Comparative genomics with microbes: pangenomics and phyloinformatics&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/cdsb-workshop-how-to-build-and-create-tidy-tools/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB Workshop 2019: How to Build and Create Tidy Tools&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;&lt;strong&gt;From August 5 to August 9, 2019&lt;/strong&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/t4-asesoria-para-el-ensamble-y-anotacion-de-tu-genoma-de-estudio/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T4. Tutoring for the assembly and annotation of your genome of choice&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2019/t5-programacion-para-principiantes-con-python&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T5: Introduction to programming with Python&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;Interested in becoming our 
&lt;a href=&#34;../../niveles-de-patrocinio/&#34;&gt;&lt;strong&gt;sponsor&lt;/strong&gt;?&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>The path from CDSBMexico 2018 to BioC2019</title>
      <link>http://comunidadbioinfo.github.io/post/path-from-cdsbmexico-2018-to-bioc2019/</link>
      <pubDate>Thu, 04 Apr 2019 22:50:47 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/path-from-cdsbmexico-2018-to-bioc2019/</guid>
      <description>&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/path_to_bioc2019.png&#34; alt=&#34;Path to BioC2019&#34;&gt;&lt;/p&gt;
&lt;p&gt;Last year the Community of Bioinformatics Software Developers (CDSB in Spanish) organized a 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;one week workshop&lt;/a&gt; designed to train &lt;code&gt;R&lt;/code&gt; users how to write &lt;code&gt;R&lt;/code&gt; packages and ideally contribute them to Bioconductor. The workshop itself was a success as described in our 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/a-recap-of-cdsb-2018-the-start-of-a-community/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;summary post about the event&lt;/a&gt;. However, we didn’t want to stop there. We formed CDSB and teamed up with 
&lt;a href=&#34;http://congresos.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;TIB&lt;/a&gt; (“Talleres Internacionales de Bioinformática”) from 
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;NNB-UNAM&lt;/a&gt; with the goal of simulating the BioC yearly meeting where attendees can learn &lt;code&gt;R&lt;/code&gt;, mature as &lt;code&gt;R&lt;/code&gt; users and become &lt;code&gt;R&lt;/code&gt; developers. We also organized this workshop 
&lt;a href=&#34;http://lcolladotor.github.io/2018/04/19/latin-american-r-bioconductor-developers-workshop-2018/#.XKZzD-tKjUI&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;because we want to see more Latin Americans at BioC&lt;/a&gt;.&lt;/p&gt;
&lt;h3 id=&#34;bioc2019-application-process&#34;&gt;BioC2019 application process&lt;/h3&gt;
&lt;p&gt;Time passed since our 2018 workshop as everyone continued on their regular jobs and training programs. 
&lt;a href=&#34;https://bioc2019.bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019&lt;/a&gt; was then announced and with it were announced the application guidelines for:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Presenting a talk or poster&lt;/li&gt;
&lt;li&gt;Applying for a travel award&lt;/li&gt;
&lt;li&gt;Proposing a workshop&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Basically, those applying for a travel award had to:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Create a website or upload their CV to a publicly available website&lt;/li&gt;
&lt;li&gt;Answer in about 150 words or less &lt;em&gt;How have you participated in the Bioconductor project in the past?&lt;/em&gt;&lt;/li&gt;
&lt;li&gt;Answer in about 150 words or less &lt;em&gt;What do you hope to get out of the conference?&lt;/em&gt;&lt;/li&gt;
&lt;li&gt;Write a scientific abstract of 300 words or less for the talk/poster proposal^[Or propose a workshop, but that’s too much to ask from those just starting their BioC journeys. It’s more appropriate for BioC &lt;em&gt;veterans&lt;/em&gt;.].&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;The whole process, while designed to be welcoming, can be a bit daunting if this is your first time applying and if English is not your native language. Thus, when we 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/cdsbmexico-remember-to-apply-for-bioc2019-travel-scholarships/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;reminded our community members about BioC2019&lt;/a&gt; we offered our help for this application process.&lt;/p&gt;
&lt;h3 id=&#34;helping-cdsb-members&#34;&gt;Helping CDSB members&lt;/h3&gt;
&lt;p&gt;Given their experience with Bioconductor, 
&lt;a href=&#34;https://comunidadbioinfo.github.io/author/areyes/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; and 
&lt;a href=&#34;https://comunidadbioinfo.github.io/author/lcollado/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado Torres&lt;/a&gt; volunteer to help CDSB members. The reminder blog post and individually contacting some CDSBMexico 2018 attendees helped find and motivate members to apply. Simply encouraging them and telling them that they had a realistic chance made a big difference, that is, believing in them and the work that we’ve done already as a community. There were many emails, Slack message channels and documents shared, but ultimately the &lt;em&gt;clean&lt;/em&gt; version of the process was the following.&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;A CSDB member expressed interest in BioC2019 to a CDSB volunteer (Alejandro or Leonardo).&lt;/li&gt;
&lt;li&gt;A CSDB volunteer reminded them of the BioC2019 application process and clarified any rule questions they had. If appropriate, the CDSB volunteer also explained some options for creating websites hosted on GitHub.&lt;/li&gt;
&lt;li&gt;The CDSB member wrote their draft answers to the two questions, plus their draft abstract, in a Google Doc that they shared with the CDSB volunteers with edit permissions. Similarly, the CDSB member created a draft website.&lt;/li&gt;
&lt;li&gt;All CDSB volunteers provided suggestions on how to present their information more clearly to the application reviewers keeping in mind what the CDSB member wanted to express about themselves or their work.&lt;/li&gt;
&lt;li&gt;The CDSB member made modifications and if appropriate asked for another round of feedback.&lt;/li&gt;
&lt;/ol&gt;
&lt;p&gt;Basically, the CDSB volunteers passed on the best practices they know for filling out these applications and writing abstracts, including here some timely advice from Wolfgang Huber (
&lt;a href=&#34;https://www.embl.de/research/units/genome_biology/huber/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;a longtime Bioconductor Project contributor&lt;/a&gt;).&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;The generic paper abstract&lt;br&gt;1. Why is it important?    (1)&lt;br&gt;2. What is &amp;quot;it&amp;quot;?   (1)&lt;br&gt;3. But what is the problem with it?    (1)&lt;br&gt;4. What did you do about the problem?    (1)&lt;br&gt;5. What was your result?   (n)&lt;br&gt;6. What are some wider implications?  (1)&lt;br&gt; (in parentheses: number of sentences)&lt;/p&gt;&amp;mdash; Wolfgang Huber 🇺🇦 (@wolfgangkhuber) &lt;a href=&#34;https://twitter.com/wolfgangkhuber/status/1098965705100283906?ref_src=twsrc%5Etfw&#34;&gt;February 22, 2019&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;h3 id=&#34;the-end-result&#34;&gt;The end result&lt;/h3&gt;
&lt;p&gt;In the end, three CDSB members went through the whole process and created their websites:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;a href=&#34;https://anabva.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Ana Beatriz Villaseñor-Altamirano&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;http://www.cesarmiguel.xyz/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;César Miguel Valdez Córdova&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;
&lt;a href=&#34;https://josschavezf.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn Chavez&lt;/a&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;They all submitted their applications for the BioC2019 travel award before the deadline expired on March 15th 2019, something that we emphasized they should do!&lt;/p&gt;
&lt;p&gt;A couple of weeks passed, and on April 2nd we were &lt;strong&gt;delighted&lt;/strong&gt; to report that all three of them got 10 minute talks 🎙and travel awards ✈️approved. This is an &lt;strong&gt;enormous&lt;/strong&gt; win for CDSB and a huge morale boost 🎉🥳.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Thank you &lt;a href=&#34;https://twitter.com/Bioconductor?ref_src=twsrc%5Etfw&#34;&gt;@Bioconductor&lt;/a&gt;!! Today 4 of our members got travel scholarships, talks and workshops approved. 6 total will attend &lt;a href=&#34;https://twitter.com/hashtag/bioc2019?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#bioc2019&lt;/a&gt; Please welcome them!&lt;a href=&#34;https://twitter.com/AnaBetty2304?ref_src=twsrc%5Etfw&#34;&gt;@AnaBetty2304&lt;/a&gt; &lt;a href=&#34;https://twitter.com/josschavezf1?ref_src=twsrc%5Etfw&#34;&gt;@josschavezf1&lt;/a&gt; @cmvaldezcordova &lt;a href=&#34;https://twitter.com/doctor_calvo?ref_src=twsrc%5Etfw&#34;&gt;@doctor_calvo&lt;/a&gt; &lt;a href=&#34;https://twitter.com/areyesq?ref_src=twsrc%5Etfw&#34;&gt;@areyesq&lt;/a&gt; &lt;a href=&#34;https://twitter.com/fellgernon?ref_src=twsrc%5Etfw&#34;&gt;@fellgernon&lt;/a&gt;&lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/diversity?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#diversity&lt;/a&gt;&lt;a href=&#34;https://t.co/apxYxSpE5Z&#34;&gt;https://t.co/apxYxSpE5Z&lt;/a&gt; &lt;a href=&#34;https://t.co/tmSYbZvi7B&#34;&gt;pic.twitter.com/tmSYbZvi7B&lt;/a&gt;&lt;/p&gt;&amp;mdash; ComunidadBioInfo (@CDSBMexico) &lt;a href=&#34;https://twitter.com/CDSBMexico/status/1113238312758566914?ref_src=twsrc%5Etfw&#34;&gt;April 3, 2019&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;We cannot hide our excitement about these news and are looking forward to seeing them at BioC2019! We hope that all of them will have a great experience  🙌🏽😃&lt;/p&gt;
&lt;h3 id=&#34;a-word-from-our-cdsb-members-going-to-bioc2019&#34;&gt;A word from our CDSB members going to BioC2019&lt;/h3&gt;
&lt;p&gt;Like we’ve said, this is just the beginning and we want to keep helping others in years to come. We thus asked Ana, César and Joselyn to share a few words to future CDSB members on the BioC2019 travel award application process and the feedback they got from CDSB volunteers.&lt;/p&gt;
&lt;h4 id=&#34;anahttpsanabvagithubio&#34;&gt;
&lt;a href=&#34;https://anabva.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Ana&lt;/a&gt;&lt;/h4&gt;
&lt;blockquote&gt;
&lt;p&gt;The application process for BioC2019 and the travel award is not so difficult at the end but when I read the requirements for the first time I was overwhelmed, I had never published a web page before and I needed it to cover one of the requirements that asked for a personal website or public CV! It crossed my mind that I would not apply but Leo and Alejandro cheered me up, supported and guided me to create my own website (now I do webpages in R for anything that I can, hehe). They also helped me with the remaining requirements and at the end, I was able to enjoy the application process, I truly appreciate all the assistance they provided me and I can’t wait to meet them in NY. Without a doubt, Leo and Alejandro are accessible and inspiring bioinformaticians and people, as a consequence CDSB is a friendly and engaged community with the aim to impulse Mexican bioinformatic development to the world.&lt;/p&gt;
&lt;/blockquote&gt;
&lt;h4 id=&#34;césarhttpwwwcesarmiguelxyz&#34;&gt;
&lt;a href=&#34;http://www.cesarmiguel.xyz/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;César&lt;/a&gt;&lt;/h4&gt;
&lt;blockquote&gt;
&lt;p&gt;When I attended CDSB Mexico 2018, the last thing I imagined was that the process would culminate in me receiving a travel scholarship for BioC2019; Impostor syndrome is absolutely real. When talking about my master’s thesis with both Alejandro and Leo, they encouraged me to go all the way with its code and try and make a contribution to the Bioconductor project in the process. Said task seemed insurmountable in the beginning. However, after attending CDSB Mexico 2018, my perspective changed significantly. A deciding factor in me taking the plunge to actually go through with the contribution and consequent conference application was the overwhelmingly constructive support I received from the community at every stage in the process, from my original idea, all the way up to the conference’s application. Along the process, I noticed that even when we often expect to have an absolutely perfect product (a personal webpage, an online CV or an r package and all that it entails) from the get-go, this is rarely the way in which things happen. Cliché as it may sound, Rome wasn’t built in a day.  Being able to shift my mindset and recognize the incremental nature of contributing has definitely set a precedent for how i’ll be handling most career oriented endeavors from now on; hopefully with continued contributions to the Bioconductor project and the open-source domain! If there’s anything I have to say to future applicants and CDSB members is just that: Do it! Reach out! Apply while embracing the community that’s there for you! With a little luck and elbow grease, things might just go your way, as they did for me.&lt;/p&gt;
&lt;/blockquote&gt;
&lt;h4 id=&#34;joselynhttpsjosschavezfgithubio&#34;&gt;
&lt;a href=&#34;https://josschavezf.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Joselyn&lt;/a&gt;&lt;/h4&gt;
&lt;blockquote&gt;
&lt;p&gt;When Alejandro Reyes and Leonardo Collado told me about applying to BioC2019 I felt nervous. I did not consider  to submit my work and even less to apply for a scholarship before receiving their e-mail. They gave me all their trust and support through the process. Now I have been elected and feel very excited with this huge opportunity. I realize how warm the CDSBMexico community can be and that is possible to be part of meetings like BioC2019, all you have to do is let go of the fear to do it.&lt;/p&gt;
&lt;/blockquote&gt;
</description>
    </item>
    
    <item>
      <title>CDSBMexico: remember to apply for BioC2019 travel scholarships</title>
      <link>http://comunidadbioinfo.github.io/post/cdsbmexico-remember-to-apply-for-bioc2019-travel-scholarships/</link>
      <pubDate>Fri, 01 Mar 2019 04:24:47 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/cdsbmexico-remember-to-apply-for-bioc2019-travel-scholarships/</guid>
      <description>&lt;p&gt;About 10 months ago 
&lt;a href=&#34;http://lcolladotor.github.io/2018/04/19/latin-american-r-bioconductor-developers-workshop-2018/#.XHiaE1NKg0o&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;we announced our plans&lt;/a&gt; to start a new community of R/Bioconductor developers in Mexico and Latin America. The National Bioinformatics Node (
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;NNB-UNAM&lt;/a&gt; in Spanish) 
&lt;a href=&#34;http://congresos.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;has organized workshops&lt;/a&gt; in bioinformatics and R since 2006 and more frequently since 2010. Last year, 2018, there were 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;five simultaneous one week workshops&lt;/a&gt;:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;Introduction to R and RStudio&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Exploratory data analysis (EDA) of biological data with R&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;EDA of RNA-seq data and differential expression studies&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Genome assembly and annotation from high-throughput sequencing data&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;And our 
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;Latin American R/Bioconductor Developers Workshop&lt;/em&gt;&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Overall it was a success as described in 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/a-recap-of-cdsb-2018-the-start-of-a-community/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;A recap of CDSB 2018: the start of a community&lt;/em&gt;&lt;/a&gt;. However, we are not done yet! 💪🏽As we have stated several times, our goal is to turn R users into developers and to increase the representation of Mexicans and Latin Americans at other R events.&lt;/p&gt;
&lt;h3 id=&#34;bioc2019&#34;&gt;BioC2019&lt;/h3&gt;
&lt;p&gt;&lt;img src=&#34;http://bioconductor.org/images/logo_bioconductor.gif&#34; alt=&#34;&#34;&gt;&lt;/p&gt;
&lt;p&gt;The one R event that we followed as a guide last year is the Bioconductor yearly meeting, or &lt;em&gt;BioC&lt;/em&gt;. This year, 
&lt;a href=&#34;https://bioc2019.bioconductor.org/index&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019&lt;/a&gt; will be held during June 24 to 27 at New York City in the United States. If you are an academic the registration fee is 300 USD prior to May 24th. As of today (Feb 28th), a round trip from Mexico City on June 23 to 28th is about 320-410 USD1. The 
&lt;a href=&#34;https://bioc2019.bioconductor.org/travel-accommodations&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;accommodation options listed&lt;/a&gt; start at 118 USD plus tax a night. As you can see, these numbers add up fairly fast which is a limiting factor for scientists from Mexico (and Latin American in general) to attend &lt;em&gt;BioC2019&lt;/em&gt;.&lt;/p&gt;
&lt;h3 id=&#34;travel-scholarships&#34;&gt;Travel scholarships&lt;/h3&gt;
&lt;p&gt;However, we want to remind you that there are travel scholarships available! And we, 
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;CDSB&lt;/em&gt;&lt;/a&gt;, want to help you! 🙌🏽&lt;/p&gt;
&lt;p&gt;All the details about the travel scholarship and different types of submission proposals are available on the 
&lt;a href=&#34;https://bioc2019.bioconductor.org/call-for-abstracts&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;BioC2019&lt;/a&gt; website. But let us summarize the process for you.&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;
&lt;p&gt;You have to apply for either a &lt;strong&gt;talk&lt;/strong&gt;, &lt;strong&gt;poster&lt;/strong&gt; or &lt;strong&gt;workshop&lt;/strong&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;You need a professional website, GitHub profile or your CV to be available online.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;You need to answer two questions:&lt;/p&gt;
&lt;/li&gt;
&lt;/ol&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;How have you participated in the Bioconductor project in the past?&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;What do you hope to get out of the conference?&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;For a talk or poster proposal you have a maximum of 300 words while workshop proposals involve filling out a template.&lt;/p&gt;
&lt;p&gt;This is quite a bit of work, but the payoff is immense! You will compete for the opportunity to travel basically for free: free registration and hotel, plus $500 for travel expenses. This can be a career changing opportunity as it was 
&lt;a href=&#34;https://speakerdeck.com/lcolladotor/cdsbmexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;the case for L. Collado-Torres (see his keynote slides)&lt;/a&gt; and others.&lt;/p&gt;
&lt;h3 id=&#34;get-started-on-your-scholarship-application&#34;&gt;Get started on your scholarship application!&lt;/h3&gt;
&lt;p&gt;We know that many of us have a tendency to do things at the last minute. However, we hope 🙏🏽
that you start your application materials as soon as you can. Remember that the deadline is &lt;strong&gt;March 15th&lt;/strong&gt; and &lt;strong&gt;no exceptions&lt;/strong&gt; are made.&lt;/p&gt;
&lt;h4 id=&#34;website&#34;&gt;Website&lt;/h4&gt;
&lt;p&gt;If you don’t have a professional website, we recommend that you make one following 
&lt;a href=&#34;https://www.emilyzabor.com/tutorials/rmarkdown_websites_tutorial.html&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Emily Zabor’s tutorial&lt;/a&gt;. This is the tutorial that one of your fellow CDSBMexico 2018 attendees used to create his website: 
&lt;a href=&#34;https://joseaia.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;joseaia.github.io&lt;/a&gt;. Alternatively, check out the 
&lt;a href=&#34;https://leanpub.com/universities/courses/jhu/cbds-intro-r&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Chromebook Data Science: intro to R course (available for free if you can’t afford it)&lt;/a&gt; which includes a lesson that walks you through this process.&lt;/p&gt;
&lt;h4 id=&#34;bioconductor-project-participation&#34;&gt;Bioconductor project participation&lt;/h4&gt;
&lt;p&gt;Next, we know that each of you worked at least in one R package during CDSBMexico 2018 such as 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-gene-regulatory-interaction-formulator-for-inquiring-networks/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;rGriffin (check the blog post)&lt;/a&gt;. Maybe you even submitted your package to Bioconductor. At least, you met and interacted with longtime Bioconductor members such as Martin Morgan and Benilton Carvalho. Since then, you might have worked on other R packages, shiny applications, etc. You might have also answered questions on the Bioconductor support website, reported bugs or opened issues in existing packages, joined the developers mailing list, joined the Bioconductor Slack workspace, etc. Ultimately, you could potentially present a poster or give a talk about the package you worked on last summer, but you’ll need to coordinate with your team members and/or lab principal investigator.&lt;/p&gt;
&lt;h4 id=&#34;benefitting-from-bioc2019&#34;&gt;Benefitting from BioC2019&lt;/h4&gt;
&lt;p&gt;As for what you hope to get out of the conference, well, we will remind you that BioC has different workshops that can help you advance your R skills and knowledge. Furthermore, there’ll be scientific talks from excellent bioinformatics researchers. Then, once you return from the conference, you can spread the knowledge you acquired in a variety of ways: implementing it on your work, teaching at your local university or research institute, participating in the Bioconductor community (Slack, the support website, contributing an R package, etc), presenting at a local R meetup, and participating in other forums. You can also benefit personally from attending the conference by networking with other users and developers that will attend it. From it, you might start new collaborations, find about graduate school programs, find potential postdoc advisors, among other opportunities. Hey, you might help us out with future CDSBMexico events!&lt;/p&gt;
&lt;h4 id=&#34;cdsbmexico-hands-on-help&#34;&gt;CDSBMexico hands on help&lt;/h4&gt;
&lt;p&gt;If you need help directly, please get in touch with us via the CDSBMexico Slack workspace. If you either don’t remember the Slack workspace or you couldn’t attend CDSBMexico 2018, please get in touch with us via Twitter at 
&lt;a href=&#34;https://twitter.com/CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;twitter.com/CDSBMexico&lt;/a&gt;.&lt;/p&gt;
&lt;p&gt;We understand that not many will be able to attend BioC2019, so keep an eye open for CDSBMexico 2019! We are hoping to announce our plans soon.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>A recap of CDSB 2018: the start of a community</title>
      <link>http://comunidadbioinfo.github.io/post/a-recap-of-cdsb-2018-the-start-of-a-community/</link>
      <pubDate>Fri, 14 Sep 2018 02:13:22 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/a-recap-of-cdsb-2018-the-start-of-a-community/</guid>
      <description>&lt;p&gt;Organizing an event is a lot of work, much more than you plan for it. But harvesting the fruits of a successful event makes the workload worth it.&lt;/p&gt;
&lt;p&gt;In July, we kicked off the first 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;strong&gt;Bioconductor Latin American Developers Workshop 2018&lt;/strong&gt;&lt;/a&gt; (&lt;em&gt;LatAmBioc2018&lt;/em&gt;). The main goals of this meeting were to encourage the development of the Bioconductor project in Mexico and to start a community of Mexican bioinformatic software developers – the &lt;strong&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Community of Bioinformatic Software Developers&lt;/a&gt;&lt;/strong&gt; (&lt;em&gt;CDSB&lt;/em&gt;, from its acronym in Spanish).&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/Logo_texto-768x107.png&#34; alt=&#34;&#34;&gt;&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;The program of the workshop included talks, posters and lessons sessions as well as a two-day hands-on development hackathon. We had over 30 participants with strong quantitative background and experience in R programming from several LatAm countries.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Excited about &lt;a href=&#34;https://twitter.com/hashtag/CDSBMexico?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#CDSBMexico&lt;/a&gt;? It starts tomorrow! &lt;br&gt;&lt;br&gt;¿Listos para mañana? 🇲🇽&lt;a href=&#34;https://t.co/UUhX5RMSut&#34;&gt;https://t.co/UUhX5RMSut&lt;/a&gt;&lt;br&gt;&lt;br&gt;Schedule&lt;a href=&#34;https://t.co/BZTD7wGskI&#34;&gt;https://t.co/BZTD7wGskI&lt;/a&gt;&lt;br&gt;&lt;br&gt;Materials&lt;a href=&#34;https://t.co/Oz2ingGije&#34;&gt;https://t.co/Oz2ingGije&lt;/a&gt;&lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/teaching?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#teaching&lt;/a&gt; &lt;a href=&#34;https://twitter.com/Bioconductor?ref_src=twsrc%5Etfw&#34;&gt;@Bioconductor&lt;/a&gt; Thanks to &lt;a href=&#34;https://twitter.com/lcgunam?ref_src=twsrc%5Etfw&#34;&gt;@lcgunam&lt;/a&gt; &lt;a href=&#34;https://twitter.com/ccg_unam?ref_src=twsrc%5Etfw&#34;&gt;@ccg_unam&lt;/a&gt; &lt;a href=&#34;https://twitter.com/LIIGH_UNAM?ref_src=twsrc%5Etfw&#34;&gt;@LIIGH_UNAM&lt;/a&gt;&lt;br&gt;SoIBio &lt;a href=&#34;https://twitter.com/RConsortium?ref_src=twsrc%5Etfw&#34;&gt;@RConsortium&lt;/a&gt;&lt;a href=&#34;https://twitter.com/wintergenomics?ref_src=twsrc%5Etfw&#34;&gt;@WINTERGENOMICS&lt;/a&gt; &lt;a href=&#34;https://t.co/YQxmnTNwQa&#34;&gt;pic.twitter.com/YQxmnTNwQa&lt;/a&gt;&lt;/p&gt;&amp;mdash; ComunidadBioInfo (@CDSBMexico) &lt;a href=&#34;https://twitter.com/CDSBMexico/status/1023705341358469122?ref_src=twsrc%5Etfw&#34;&gt;July 29, 2018&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;h3 id=&#34;community-building&#34;&gt;Community building&lt;/h3&gt;
&lt;p&gt;Unlike the US and Europe, where many universities have Computational Biology and Biostatistics Departments that gather experts in the field, in Mexico and Latin America experts in Biostatistics and Computational Biology are often spread across the country. The benefits of having Computational Biology and Biostatistics Departments are plenty: for example, experts can interact and work together on a specific problem, and researchers from other disciplines can easily find support and establish collaborations. The goal of CDSB is to create a virtual department where experts in Biostatistics and Computational Biology can discuss ideas and help each other across all stages of their careers.&lt;/p&gt;
&lt;p&gt;The first event organized by CDSB, &lt;strong&gt;LatAmBioc2018&lt;/strong&gt; included talks where both participants and speakers could start a dialogue and motivate each other by showcasing their work. As keynote invited speakers we had Daniel Piñero, who talked about population genetics of maize in Mexico; Alejandro Ponce-Mendoza, who showed elegant shiny apps to visualize ecological data along with maps; Teresa Ortiz, who talked about gender biases among R programmers; and Benilton Carvalho, who showed the development of personalized medicine in Brazil.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;We are having a great presentation from the founder of &lt;a href=&#34;https://twitter.com/RLadiesCDMX?ref_src=twsrc%5Etfw&#34;&gt;@RLadiesCDMX&lt;/a&gt;, &lt;a href=&#34;https://twitter.com/TeresaOM?ref_src=twsrc%5Etfw&#34;&gt;@TeresaOM&lt;/a&gt;, about getting rid of gender biases among the &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; community. &lt;a href=&#34;https://twitter.com/hashtag/LatAmBioc18?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#LatAmBioc18&lt;/a&gt; &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/womeninSTEM?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#womeninSTEM&lt;/a&gt; &lt;a href=&#34;https://t.co/TPdDzHVdqC&#34;&gt;pic.twitter.com/TPdDzHVdqC&lt;/a&gt;&lt;/p&gt;&amp;mdash; Alejandro Reyes (@areyesq) &lt;a href=&#34;https://twitter.com/areyesq/status/1025041063499771904?ref_src=twsrc%5Etfw&#34;&gt;August 2, 2018&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;The LatAmBioc2018 poster session was designed to encourage interdisciplinary collaborations. We invited people to contribute bioinformatic problems that would benefit from advice from experts such as the participants of LatAmBioc2018. We were happy to see that this event helped to create new collaborations.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Here, we are presenting the basic structure and some examples with the framework -Winterflow- using &lt;a href=&#34;https://twitter.com/nextflowio?ref_src=twsrc%5Etfw&#34;&gt;@nextflowio&lt;/a&gt;, &lt;a href=&#34;https://twitter.com/Docker?ref_src=twsrc%5Etfw&#34;&gt;@Docker&lt;/a&gt;, &lt;a href=&#34;https://twitter.com/hashtag/mk?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#mk&lt;/a&gt; and &lt;a href=&#34;https://twitter.com/hashtag/git?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#git&lt;/a&gt; &lt;a href=&#34;https://t.co/Ktn9o01X2Z&#34;&gt;pic.twitter.com/Ktn9o01X2Z&lt;/a&gt;&lt;/p&gt;&amp;mdash; Winter Genomics (@wintergenomics) &lt;a href=&#34;https://twitter.com/wintergenomics/status/1025149135081623553?ref_src=twsrc%5Etfw&#34;&gt;August 2, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;h3 id=&#34;a-latam-bioconductor-community&#34;&gt;A LatAm Bioconductor community&lt;/h3&gt;
&lt;p&gt;Anecdotally, some of us felt that Latin Americans were not fully represented in the Bioconductor Developers Meetings (see Leonardo Collado Torres’s &lt;strong&gt;
&lt;a href=&#34;http://lcolladotor.github.io/2018/04/19/latin-american-r-bioconductor-developers-workshop-2018&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;blog post&lt;/a&gt;&lt;/strong&gt;). As scientists, we like our statements to be supported by data: the map below shows the affiliations, when available, of the contributors of the latest package submissions to the Bioconductor project. (These data were scraped using the Github API.) Although biases such as Mexican contributors with affiliations abroad might not have been considered, it is clear that only a few contributions come from Latin American countries.&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/mapa_editado-768x333.png&#34; alt=&#34;&#34;&gt;&lt;/p&gt;
&lt;p&gt;In hopes of filling this gap, we gathered a diverse team of instructors, including Martin Morgan, Benilton Carvalho and Selene L. Fernandez-Valverde, who taught participants how to develop R/Bioconductor packages. The main idea was to turn Bioconductor software users into Bioconductor software developers.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Let&amp;#39;s estimate Pi! Rcpp exercise! Rcpp sugar! Now I&amp;#39;m hungry, I want pie &lt;a href=&#34;https://twitter.com/benilton?ref_src=twsrc%5Etfw&#34;&gt;@benilton&lt;/a&gt; &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/CDSBMexico?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/TIBMexico2018?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#TIBMexico2018&lt;/a&gt; 🍰👩‍💻 &lt;a href=&#34;https://t.co/2OeGWr35r3&#34;&gt;pic.twitter.com/2OeGWr35r3&lt;/a&gt;&lt;/p&gt;&amp;mdash; Alejandra Medina-Rivera (@AleMedinaRivera) &lt;a href=&#34;https://twitter.com/AleMedinaRivera/status/1024705893148094464?ref_src=twsrc%5Etfw&#34;&gt;August 1, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;How to debug R code with Martin Morgan :D &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt;&lt;/p&gt;&amp;mdash; Semiramis (@semiramis_cj) &lt;a href=&#34;https://twitter.com/semiramis_cj/status/1024716087185821696?ref_src=twsrc%5Etfw&#34;&gt;August 1, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;p&gt;Participants attended lectures from Monday to Wednesday. Before the workshop, co-organizer Daniela Ledezma received and coordinated R package development proposals. On Wednesday afternoon, the participants formed teams and chose problems from Daniela’s curated list. They worked on their projects on Thursday and Friday, and we were very pleased with the final products: most teams wrote documented R packages that are available through GitHub. Two interesting examples are the prototype of the &lt;code&gt;regulonDB&lt;/code&gt; package, which enables users to query RegulonDB within an R interphase, and &lt;code&gt;rGriffin&lt;/code&gt;, an R interphase to inquire regulatory networks (for details, check &lt;strong&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-gene-regulatory-interaction-formulator-for-inquiring-networks&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;their contributed blog post&lt;/a&gt;&lt;/strong&gt;).&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Participants are gathering to work in collaborative projects targeting specific questions. The objetive is write a fully documented &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; package by Friday. &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/LatAmBioc18?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#LatAmBioc18&lt;/a&gt; &lt;a href=&#34;https://t.co/vDAvuOothC&#34;&gt;pic.twitter.com/vDAvuOothC&lt;/a&gt;&lt;/p&gt;&amp;mdash; Alejandro Reyes (@areyesq) &lt;a href=&#34;https://twitter.com/areyesq/status/1024780770756440069?ref_src=twsrc%5Etfw&#34;&gt;August 1, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;&lt;a href=&#34;https://twitter.com/hashtag/CDSBMexico?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#CDSBMexico&lt;/a&gt; package developers course attendants presenting their projects &lt;a href=&#34;https://twitter.com/hashtag/TIBs2018?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#TIBs2018&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/CDSBMexico?ref_src=twsrc%5Etfw&#34;&gt;@CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://t.co/ST44hCsLT6&#34;&gt;pic.twitter.com/ST44hCsLT6&lt;/a&gt;&lt;/p&gt;&amp;mdash; Alejandra Medina-Rivera (@AleMedinaRivera) &lt;a href=&#34;https://twitter.com/AleMedinaRivera/status/1025429501478498304?ref_src=twsrc%5Etfw&#34;&gt;August 3, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;p&gt;We are looking forward to seeing how the participants keep developing their R packages and collaborating through CSDB.&lt;/p&gt;
&lt;h3 id=&#34;overachievers&#34;&gt;Overachievers&lt;/h3&gt;
&lt;p&gt;We felt that the goals of the workshop were reached programmers from all over Latin America worked together and wrote new R packages, which hopefully will be submitted to Bioconductor soon.&lt;/p&gt;
&lt;p&gt;We also had the chance to enjoy some good Mexican food and hang out with colleagues in less formal settings, such as lunches and group outings. To celebrate the conclusion of the workshop, we had an improvised party in a bar that played Latin American music. As any good party should, it ended up quite late. Some of us went to bed at 4am, but we woke up energized to keep CSDB going. Even now, two months on, we are excited to continue developing a strong community of bioinformatic developers in Latin America.&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;In &lt;a href=&#34;https://twitter.com/hashtag/mexico?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#mexico&lt;/a&gt;, we don&amp;#39;t only know how to do &lt;a href=&#34;https://twitter.com/hashtag/Science?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#Science&lt;/a&gt; and  good &lt;a href=&#34;https://twitter.com/hashtag/Bioinformatics?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#Bioinformatics&lt;/a&gt;  but also how to eat! Tacos during &lt;a href=&#34;https://twitter.com/hashtag/TIBMexico2018?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#TIBMexico2018&lt;/a&gt; and &lt;a href=&#34;https://twitter.com/qBio18?ref_src=twsrc%5Etfw&#34;&gt;@qBio18&lt;/a&gt; @AlexielMedyna &lt;a href=&#34;https://twitter.com/licloona1487?ref_src=twsrc%5Etfw&#34;&gt;@licloona1487&lt;/a&gt; something great is happening here 😊 &lt;a href=&#34;https://t.co/bC7ycfIA9n&#34;&gt;pic.twitter.com/bC7ycfIA9n&lt;/a&gt;&lt;/p&gt;&amp;mdash; Ana B Villaseñor-Altamirano (@AnaBetty2304) &lt;a href=&#34;https://twitter.com/AnaBetty2304/status/1025115717279141889?ref_src=twsrc%5Etfw&#34;&gt;August 2, 2018&lt;/a&gt;&lt;/blockquote&gt;
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&lt;h3 id=&#34;thank-you&#34;&gt;Thank you&lt;/h3&gt;
&lt;p&gt;The LatAmBioc2018 would not have been possible without the time and support from the instructors, presenters, organizers and our sponsors CCG-UNAM, LCG-UNAM, LIIGH-UNAM, Winter Genomics, R Consortium and SoIBio.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>R Gene Regulatory Interaction Formulator For Inquiring Networks</title>
      <link>http://comunidadbioinfo.github.io/post/r-gene-regulatory-interaction-formulator-for-inquiring-networks/</link>
      <pubDate>Mon, 20 Aug 2018 21:45:28 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/r-gene-regulatory-interaction-formulator-for-inquiring-networks/</guid>
      <description>


&lt;p&gt;&lt;em&gt;This blog post was written by &lt;a href=&#34;https://github.com/mar-esther23/&#34;&gt;ME Martinez-Sanchez&lt;/a&gt;, &lt;a href=&#34;https://www.researchgate.net/profile/Stalin_Munoz&#34;&gt;S Muñoz&lt;/a&gt;, &lt;a href=&#34;http://www.fciencias.unam.mx/directorio/33021&#34;&gt;M Carrillo&lt;/a&gt;, &lt;a href=&#34;https://www.researchgate.net/profile/Eugenio_Azpeitia&#34;&gt;E Azpeitia&lt;/a&gt;, &lt;a href=&#34;turing.iimas.unam.mx/~drosenbl/&#34;&gt;D Rosenblueth&lt;/a&gt;.&lt;/em&gt;&lt;/p&gt;
&lt;p&gt;In this blog post we will describe the package &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; &lt;a id=&#39;cite-Martinez-Sanchez_2018&#39;&gt;&lt;/a&gt;(&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) that was one of the projects developed during the &lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/r-bioconductor-developers-workshop-2018/&#34;&gt;TIB2018-BCDW&lt;/a&gt;. We hope to continue developing &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt; and &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;). If you have ideas, suggestions or bugs, please contact us via &lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin GitHub repo&lt;/a&gt;.&lt;/p&gt;
&lt;div class=&#34;figure&#34;&gt;
&lt;img src=&#34;http://lcolladotor.github.io/post/2018-09-13-r-gene-regulatory-interaction-formulator-for-inquiring-networks_files/header.jpg&#34; width=&#34;800&#34; /&gt;

&lt;/div&gt;
&lt;div id=&#34;the-problem&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;The problem&lt;/h3&gt;
&lt;p&gt;Boolean networks allow us to give a mechanistic explanation to how cell types emerge from regulatory networks. However, inferring the regulatory network and its functions is complex problem, as the available information is often incomplete. &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) uses available biological information (regulatory interactions, cell types, mutants) codified as a set of restrictions and returns the &lt;a href=&#34;https://en.wikipedia.org/wiki/Boolean_network&#34;&gt;Boolean Networks&lt;/a&gt; that satisfy that restrictions. This Boolean networks can then be used to study the biological system.&lt;/p&gt;
&lt;p&gt;The &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) package is an R connector to &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt; (Gene Regulatory Interaction Formulator For Inquiring Networks), a java library for inference and analysis of Boolean Network models. &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt; takes as inputs biologically meaningful constraints and turns them into a symbolic representation. Using a SAT engine, &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt; explores the Boolean Network search space, finding all satisfying assignments that are compatible with the specified constraints. The &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) package includes a number of functions to interact with the BoolNet package.&lt;/p&gt;
&lt;/div&gt;
&lt;div id=&#34;a-small-example&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;A small example&lt;/h3&gt;
&lt;p&gt;Let us suppose a cell, we know that this cell has three proteins called &lt;strong&gt;a&lt;/strong&gt;, &lt;strong&gt;b&lt;/strong&gt; and &lt;strong&gt;c&lt;/strong&gt;. We know that &lt;strong&gt;a&lt;/strong&gt; activates &lt;strong&gt;b&lt;/strong&gt; and that &lt;strong&gt;b&lt;/strong&gt; and &lt;strong&gt;c&lt;/strong&gt; inhibit each other. We also suspect that &lt;strong&gt;b&lt;/strong&gt; and &lt;strong&gt;c&lt;/strong&gt; &lt;strong&gt;may&lt;/strong&gt; have positive self-regulatory loops. We can add this interactions to the table as “OPU” (optional, positive, unambiguous). This dataframe is the topology of the network.&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr class=&#34;header&#34;&gt;
&lt;th&gt;Source&lt;/th&gt;
&lt;th&gt;Target&lt;/th&gt;
&lt;th&gt;Interaction&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr class=&#34;odd&#34;&gt;
&lt;td&gt;a&lt;/td&gt;
&lt;td&gt;b&lt;/td&gt;
&lt;td&gt;+&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;even&#34;&gt;
&lt;td&gt;b&lt;/td&gt;
&lt;td&gt;c&lt;/td&gt;
&lt;td&gt;-&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;odd&#34;&gt;
&lt;td&gt;c&lt;/td&gt;
&lt;td&gt;b&lt;/td&gt;
&lt;td&gt;-&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;even&#34;&gt;
&lt;td&gt;b&lt;/td&gt;
&lt;td&gt;b&lt;/td&gt;
&lt;td&gt;OPU&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;odd&#34;&gt;
&lt;td&gt;c&lt;/td&gt;
&lt;td&gt;c&lt;/td&gt;
&lt;td&gt;OPU&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;p&gt;Suppose we also have some information of what cell types have been observed. For example, there is a cell type that expresses &lt;strong&gt;b&lt;/strong&gt;, but not &lt;strong&gt;a&lt;/strong&gt; or &lt;strong&gt;c&lt;/strong&gt; and an other cell type that expresses &lt;strong&gt;c&lt;/strong&gt;, but not &lt;strong&gt;a&lt;/strong&gt; or &lt;strong&gt;b&lt;/strong&gt;. There might exist a third cell type that has not been fully characterized where we know that the cell expresses no &lt;strong&gt;a&lt;/strong&gt; or &lt;strong&gt;c&lt;/strong&gt; but we have NO information on &lt;strong&gt;b&lt;/strong&gt;. This dataframe is the attractors of the network.&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr class=&#34;header&#34;&gt;
&lt;th&gt;a&lt;/th&gt;
&lt;th&gt;b&lt;/th&gt;
&lt;th&gt;c&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr class=&#34;odd&#34;&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;td&gt;1&lt;/td&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;even&#34;&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;td&gt;1&lt;/td&gt;
&lt;/tr&gt;
&lt;tr class=&#34;odd&#34;&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;td&gt;*&lt;/td&gt;
&lt;td&gt;0&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;p&gt;We can then use this information to create a query. &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) can include other types of information like transition between cell type, cycles, transitions between cell types or mutant cell types.&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;## Install using:
# devtools::install_github(&amp;#39;mar-esther23/rgriffin&amp;#39;)
## Note that the package depends on rJava

library(&amp;#39;rGriffin&amp;#39;)&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## Loading required package: rJava&lt;/code&gt;&lt;/pre&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;genes = c(&amp;#39;a&amp;#39;,&amp;#39;b&amp;#39;,&amp;#39;c&amp;#39;)
inter = data.frame(source=c(&amp;#39;a&amp;#39;,&amp;#39;b&amp;#39;,&amp;#39;c&amp;#39;, &amp;#39;b&amp;#39;,&amp;#39;c&amp;#39;), 
                  target=c(&amp;#39;b&amp;#39;, &amp;#39;c&amp;#39;, &amp;#39;b&amp;#39;, &amp;#39;b&amp;#39;, &amp;#39;c&amp;#39;), 
                  type=c(&amp;#39;+&amp;#39;,&amp;#39;-&amp;#39;,&amp;#39;-&amp;#39;,&amp;#39;OPU&amp;#39;,&amp;#39;OPU&amp;#39;),
                    stringsAsFactors = F )
q = create.gquery.graph(inter, genes)
attr = data.frame(a=c(0,&amp;#39;*&amp;#39;,0), 
                 b=c(0,1,0), 
                 c=c(0,0,1),
                 stringsAsFactors = F )
q = add.gquery.attractors(q, attr)&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;Then we can use &lt;code&gt;Griffin&lt;/code&gt; to find the networks that behave according with our biological information.&lt;/p&gt;
&lt;pre class=&#34;r&#34;&gt;&lt;code&gt;nets = run.gquery(q)
nets&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## [1] &amp;quot;targets,factors\na,false\nb,((((!a&amp;amp;b)&amp;amp;!c)|((a&amp;amp;!b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;!c))\nc,(!b&amp;amp;c)\n&amp;quot;                         
## [2] &amp;quot;targets,factors\na,false\nb,(((((!a&amp;amp;b)&amp;amp;!c)|((a&amp;amp;!b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;c))\nc,(!b&amp;amp;c)\n&amp;quot;             
## [3] &amp;quot;targets,factors\na,false\nb,((((((!a&amp;amp;b)&amp;amp;!c)|((!a&amp;amp;b)&amp;amp;c))|((a&amp;amp;!b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;c))\nc,(!b&amp;amp;c)\n&amp;quot;
## [4] &amp;quot;targets,factors\na,false\nb,((((!a&amp;amp;b)&amp;amp;!c)|((a&amp;amp;b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;c))\nc,(!b&amp;amp;c)\n&amp;quot;                           
## [5] &amp;quot;targets,factors\na,false\nb,((((((!a&amp;amp;b)&amp;amp;!c)|((a&amp;amp;!b)&amp;amp;!c))|((a&amp;amp;!b)&amp;amp;c))|((a&amp;amp;b)&amp;amp;!c))|((a&amp;amp;b)&amp;amp;c))\nc,(!b&amp;amp;c)\n&amp;quot;&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;There are multiple options to integrate &lt;code&gt;BoolNet&lt;/code&gt; and &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;). The function &lt;code&gt;get.net.topology()&lt;/code&gt; can obtain the topology with interaction signs of a BoolNet network. The function &lt;code&gt;attractor2dataframe()&lt;/code&gt; can be used to export a BoolNet attractor as a dataframe that &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) can use. The function &lt;code&gt;run.gquery()&lt;/code&gt; includes the option &lt;code&gt;return=’BoolNet’&lt;/code&gt;, that return the inferred networks as &lt;code&gt;BoolNet&lt;/code&gt; networks.&lt;/p&gt;
&lt;/div&gt;
&lt;div id=&#34;history&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;History&lt;/h3&gt;
&lt;p&gt;The development of &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt; began in 2013 as a PAPIIT (Programa de Apoyo a Proyectos de Investigación e Innovación Tecnológica) project to solve the inference of Boolean Network models for the &lt;strong&gt;Arabidopsis thaliana&lt;/strong&gt; root stem cell niche. It continued in 2015 with support of Conacyt grant 221341.&lt;/p&gt;
&lt;p&gt;In January, 2017 we organized a course in &lt;a href=&#34;https://www.c3.unam.mx&#34;&gt;C3-UNAM&lt;/a&gt; to teach biologist how to use &lt;a href=&#34;http://turing.iimas.unam.mx/griffin/&#34;&gt;&lt;code&gt;Griffin&lt;/code&gt;&lt;/a&gt;. We received two main comments: the input format was too complicated and it was uncomfortable to use the output with other packages. After some consideration we decided to create an &lt;code&gt;R&lt;/code&gt; wrapper that could export and import &lt;code&gt;BoolNet&lt;/code&gt; networks. We selected &lt;code&gt;BoolNet&lt;/code&gt; as it has an good documentation and the package &lt;code&gt;BoolFilter&lt;/code&gt; had been designed to work with it.&lt;/p&gt;
&lt;p&gt;The development of &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) began during the &lt;a href=&#34;http://fejer.ucol.mx/biomate/&#34;&gt;EOBM 2017&lt;/a&gt; in &lt;a href=&#34;https://portal.ucol.mx/cuib/&#34;&gt;CUIB&lt;/a&gt;. For the following year we continued developing &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) as our schedules allowed. There were multiple challenges during the development: defining user-friendly inputs, using &lt;code&gt;Rjava&lt;/code&gt;, and structuring the package. In August 2018, we attended the &lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/r-bioconductor-developers-workshop-2018/&#34;&gt;TIB2018-BCDW&lt;/a&gt; where we received valuable guidance from Martin Morgan and Benilton S Carvalho. It was during this workshop that the first version of &lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;) was finished.&lt;/p&gt;
&lt;/div&gt;
&lt;div id=&#34;acknowledgments&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;Acknowledgments&lt;/h3&gt;
&lt;p&gt;Here you can find the tweet about the original blog post:&lt;/p&gt;
&lt;blockquote class=&#34;twitter-tweet&#34;&gt;&lt;p lang=&#34;en&#34; dir=&#34;ltr&#34;&gt;Check our first contributed blog post: R Gene Regulatory Interaction Formulator For Inquiring Networks&lt;a href=&#34;https://t.co/9azbElGZGH&#34;&gt;https://t.co/9azbElGZGH&lt;/a&gt;&lt;br&gt;&lt;br&gt;ME Martinez-Sanchez, S Muñoz, M Carrillo, E Azpeitia, D Rosenblueth&lt;br&gt;&lt;br&gt;Thx &lt;a href=&#34;https://twitter.com/mt_morgan?ref_src=twsrc%5Etfw&#34;&gt;@mt_morgan&lt;/a&gt; &lt;a href=&#34;https://twitter.com/benilton?ref_src=twsrc%5Etfw&#34;&gt;@benilton&lt;/a&gt;!&lt;a href=&#34;https://twitter.com/hashtag/CDSBMexico?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#CDSBMexico&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/TIB2018?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#TIB2018&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/LatAmBioc18?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#LatAmBioc18&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/rstats?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#rstats&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/TIB?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#TIB&lt;/a&gt; &lt;a href=&#34;https://twitter.com/hashtag/blog?src=hash&amp;amp;ref_src=twsrc%5Etfw&#34;&gt;#blog&lt;/a&gt; &lt;a href=&#34;https://t.co/TbJv37fkWQ&#34;&gt;pic.twitter.com/TbJv37fkWQ&lt;/a&gt;&lt;/p&gt;&amp;mdash; ComunidadBioInfo (@CDSBMexico) &lt;a href=&#34;https://twitter.com/CDSBMexico/status/1031904001833414659?ref_src=twsrc%5Etfw&#34;&gt;August 21, 2018&lt;/a&gt;&lt;/blockquote&gt;
&lt;script async src=&#34;https://platform.twitter.com/widgets.js&#34; charset=&#34;utf-8&#34;&gt;&lt;/script&gt;


&lt;p&gt;This blog post was made possible thanks to:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;&lt;em&gt;&lt;a href=&#34;https://CRAN.R-project.org/package=blogdown&#34;&gt;blogdown&lt;/a&gt;&lt;/em&gt; &lt;a id=&#39;cite-Xie_2017&#39;&gt;&lt;/a&gt;(&lt;a href=&#39;https://github.com/rstudio/blogdown&#39;&gt;Xie, Hill, and Thomas, 2017&lt;/a&gt;)&lt;/li&gt;
&lt;li&gt;&lt;em&gt;&lt;a href=&#34;https://CRAN.R-project.org/package=devtools&#34;&gt;devtools&lt;/a&gt;&lt;/em&gt; &lt;a id=&#39;cite-Wickham_2018&#39;&gt;&lt;/a&gt;(&lt;a href=&#39;https://CRAN.R-project.org/package=devtools&#39;&gt;Wickham, Hester, and Chang, 2018&lt;/a&gt;)&lt;/li&gt;
&lt;li&gt;&lt;em&gt;&lt;a href=&#34;https://CRAN.R-project.org/package=knitcitations&#34;&gt;knitcitations&lt;/a&gt;&lt;/em&gt; &lt;a id=&#39;cite-Boettiger_2017&#39;&gt;&lt;/a&gt;(&lt;a href=&#39;https://CRAN.R-project.org/package=knitcitations&#39;&gt;Boettiger, 2017&lt;/a&gt;)&lt;/li&gt;
&lt;li&gt;&lt;em&gt;&lt;a href=&#34;https://github.com/mar-esther23/rGriffin&#34;&gt;rGriffin&lt;/a&gt;&lt;/em&gt; (&lt;a href=&#39;#bib-Martinez-Sanchez_2018&#39;&gt;Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018&lt;/a&gt;)&lt;/li&gt;
&lt;/ul&gt;
&lt;/div&gt;
&lt;div id=&#34;references&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;References&lt;/h3&gt;
&lt;p&gt;
&lt;a id=&#39;bib-Boettiger_2017&#39;&gt;&lt;/a&gt;&lt;a href=&#34;#cite-Boettiger_2017&#34;&gt;[1]&lt;/a&gt;&lt;cite&gt; C. Boettiger. &lt;em&gt;knitcitations: Citations for ‘Knitr’ Markdown Files&lt;/em&gt;. R package version 1.0.8. 2017. URL: &lt;a href=&#34;https://CRAN.R-project.org/package=knitcitations&#34;&gt;https://CRAN.R-project.org/package=knitcitations&lt;/a&gt;.&lt;/cite&gt;
&lt;/p&gt;
&lt;p&gt;
&lt;a id=&#39;bib-Martinez-Sanchez_2018&#39;&gt;&lt;/a&gt;&lt;a href=&#34;#cite-Martinez-Sanchez_2018&#34;&gt;[2]&lt;/a&gt;&lt;cite&gt; M. Martinez-Sanchez, S. Muñoz, M. Carrillo, E. Azpeitia, et al. &lt;em&gt;rGriffin: Gene Regulatory Interaction Formulator For Inquiring Networks&lt;/em&gt;. R package version 0.1. 2018.&lt;/cite&gt;
&lt;/p&gt;
&lt;p&gt;
&lt;a id=&#39;bib-Wickham_2018&#39;&gt;&lt;/a&gt;&lt;a href=&#34;#cite-Wickham_2018&#34;&gt;[3]&lt;/a&gt;&lt;cite&gt; H. Wickham, J. Hester and W. Chang. &lt;em&gt;devtools: Tools to Make Developing R Packages Easier&lt;/em&gt;. R package version 1.13.6. 2018. URL: &lt;a href=&#34;https://CRAN.R-project.org/package=devtools&#34;&gt;https://CRAN.R-project.org/package=devtools&lt;/a&gt;.&lt;/cite&gt;
&lt;/p&gt;
&lt;p&gt;
&lt;a id=&#39;bib-Xie_2017&#39;&gt;&lt;/a&gt;&lt;a href=&#34;#cite-Xie_2017&#34;&gt;[4]&lt;/a&gt;&lt;cite&gt; Y. Xie, A. P. Hill and A. Thomas. &lt;em&gt;blogdown: Creating Websites with R Markdown&lt;/em&gt;. ISBN 978-0815363729. Boca Raton, Florida: Chapman and Hall/CRC, 2017. URL: &lt;a href=&#34;https://github.com/rstudio/blogdown&#34;&gt;https://github.com/rstudio/blogdown&lt;/a&gt;.&lt;/cite&gt;
&lt;/p&gt;
&lt;/div&gt;
&lt;div id=&#34;reproducibility&#34; class=&#34;section level3&#34;&gt;
&lt;h3&gt;Reproducibility&lt;/h3&gt;
&lt;pre&gt;&lt;code&gt;## Session info ----------------------------------------------------------------------------------------------------------&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;##  setting  value                       
##  version  R version 3.5.1 (2018-07-02)
##  system   x86_64, darwin15.6.0        
##  ui       X11                         
##  language (EN)                        
##  collate  en_US.UTF-8                 
##  tz       America/New_York            
##  date     2018-09-13&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;## Packages --------------------------------------------------------------------------------------------------------------&lt;/code&gt;&lt;/pre&gt;
&lt;pre&gt;&lt;code&gt;##  package       * version date       source                                
##  backports       1.1.2   2017-12-13 cran (@1.1.2)                         
##  base          * 3.5.1   2018-07-09 local                                 
##  bibtex          0.4.2   2017-06-30 CRAN (R 3.5.0)                        
##  BiocManager     1.30.2  2018-08-24 CRAN (R 3.5.0)                        
##  BiocStyle     * 2.9.6   2018-08-19 Bioconductor                          
##  blogdown        0.8     2018-07-15 CRAN (R 3.5.0)                        
##  bookdown        0.7     2018-02-18 CRAN (R 3.5.0)                        
##  colorout      * 1.2-0   2018-05-03 Github (jalvesaq/colorout@c42088d)    
##  compiler        3.5.1   2018-07-09 local                                 
##  datasets      * 3.5.1   2018-07-09 local                                 
##  devtools      * 1.13.6  2018-06-27 CRAN (R 3.5.0)                        
##  digest          0.6.16  2018-08-22 CRAN (R 3.5.0)                        
##  evaluate        0.11    2018-07-17 CRAN (R 3.5.0)                        
##  graphics      * 3.5.1   2018-07-09 local                                 
##  grDevices     * 3.5.1   2018-07-09 local                                 
##  htmltools       0.3.6   2017-04-28 cran (@0.3.6)                         
##  httr            1.3.1   2017-08-20 CRAN (R 3.5.0)                        
##  jsonlite        1.5     2017-06-01 CRAN (R 3.5.0)                        
##  knitcitations * 1.0.8   2017-07-04 CRAN (R 3.5.0)                        
##  knitr           1.20    2018-02-20 cran (@1.20)                          
##  lubridate       1.7.4   2018-04-11 CRAN (R 3.5.0)                        
##  magrittr        1.5     2014-11-22 cran (@1.5)                           
##  memoise         1.1.0   2017-04-21 CRAN (R 3.5.0)                        
##  methods       * 3.5.1   2018-07-09 local                                 
##  plyr            1.8.4   2016-06-08 cran (@1.8.4)                         
##  R6              2.2.2   2017-06-17 CRAN (R 3.5.0)                        
##  Rcpp            0.12.18 2018-07-23 CRAN (R 3.5.1)                        
##  RefManageR      1.2.0   2018-04-25 CRAN (R 3.5.0)                        
##  rGriffin      * 0.1     2018-09-13 Github (mar-esther23/rgriffin@04cdc39)
##  rJava         * 0.9-10  2018-05-29 CRAN (R 3.5.0)                        
##  rmarkdown       1.10    2018-06-11 CRAN (R 3.5.0)                        
##  rprojroot       1.3-2   2018-01-03 cran (@1.3-2)                         
##  stats         * 3.5.1   2018-07-09 local                                 
##  stringi         1.2.4   2018-07-20 CRAN (R 3.5.0)                        
##  stringr         1.3.1   2018-05-10 CRAN (R 3.5.0)                        
##  tools           3.5.1   2018-07-09 local                                 
##  utils         * 3.5.1   2018-07-09 local                                 
##  withr           2.1.2   2018-03-15 CRAN (R 3.5.0)                        
##  xfun            0.3     2018-07-06 CRAN (R 3.5.0)                        
##  xml2            1.2.0   2018-01-24 CRAN (R 3.5.0)                        
##  yaml            2.2.0   2018-07-25 CRAN (R 3.5.0)&lt;/code&gt;&lt;/pre&gt;
&lt;/div&gt;
</description>
    </item>
    
    <item>
      <title>Become our sponsor</title>
      <link>http://comunidadbioinfo.github.io/niveles-de-patrocinio/</link>
      <pubDate>Wed, 09 May 2018 16:06:58 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/niveles-de-patrocinio/</guid>
      <description>&lt;p&gt;If you want to sponsor us please get in touch: 
&lt;a href=&#34;mailto:cdsbmexico@gmail.com&#34;&gt;&lt;strong&gt;cdsbmexico@gmail.com&lt;/strong&gt;&lt;/a&gt;. Thank you!&lt;/p&gt;
&lt;h3 id=&#34;why-you-should-support-us&#34;&gt;Why you should support us?&lt;/h3&gt;
&lt;p&gt;
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt; and 
&lt;a href=&#34;http://congresos.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;TIBs&lt;/a&gt; are workshops held yearly in Cuernavaca, Morelos, Mexico in a week chosen such that students, faculty, and industry employees across the country are more likely to be able to travel and attend the workshops. Workshop participants come from all over the country (and abroad) representing a unique opportunity to reach budding bioinformatics talent from many states without having to travel to them. From 2010 to 2019, participants came from an average of 18/32 (56%) different Mexican states and 4 countries, with a mean of 80 students and 49 academia or industry employees per event. The workshop organizers and core instructors are seasoned veterans that have received positive reviews from participants across the years. By sponsoring these workshops you will have the opportunity to &lt;strong&gt;help train and recruit talent for your institution&lt;/strong&gt;. The workshops are jointly organized by the 
&lt;a href=&#34;http://www.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;National Bioinformatics Node (NNB in Spanish)&lt;/a&gt; and the 
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Community of Bioinformatics Software Developers (CDSB in Spanish)&lt;/a&gt; with the logistical support by the 
&lt;a href=&#34;https://www.redmexicanadebioinformatica.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Mexican Bioinformatics Network (RMB in Spanish)&lt;/a&gt;. All events follow a 
&lt;a href=&#34;https://comunidadbioinfo.github.io/codigo-de-conducta/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;code of conduct&lt;/a&gt; designed to foster a welcoming environment for everyone involved.&lt;/p&gt;
&lt;h3 id=&#34;sponsor-levels&#34;&gt;Sponsor levels&lt;/h3&gt;
&lt;h4 id=&#34;platinum-level&#34;&gt;&lt;strong&gt;PLATINUM LEVEL&lt;/strong&gt;&lt;/h4&gt;
&lt;p&gt;&lt;strong&gt;$5,000 USD or more&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;The option to present directly or show a promotional video for 5 minutes in all of the workshops: 
&lt;a href=&#34;http://congresos.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;TIB workshops&lt;/a&gt; and 
&lt;a href=&#34;https://comunidadbioinfo.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;CDSB&lt;/a&gt;.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Recognition as a sponsor in the videos made prior to and during the event.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;A total of two full registrations as a courtesy for any of the workshops of the event.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Opportunity to request a blog post written by the event organizers on your website.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Includes all items offered to gold level sponsors.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h4 id=&#34;gold-level&#34;&gt;&lt;strong&gt;GOLD LEVEL&lt;/strong&gt;&lt;/h4&gt;
&lt;p&gt;&lt;strong&gt;$2,500 USD or more&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;Recognition as a sponsor in a promotional item that will be given to participants.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;You will be allowed a display exhibition module during the event where you will be able to interact directly with participants during breaks.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;A full registration as a courtesy for any of the workshops of the event.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Includes all items offered to silver level sponsors.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h4 id=&#34;silver-level&#34;&gt;&lt;strong&gt;SILVER LEVEL&lt;/strong&gt;&lt;/h4&gt;
&lt;p&gt;&lt;strong&gt;$1,000 USD or more&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;Recognition as a sponsor in our event website.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Recognition as a sponsor in all social media posts.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Opportunity to distribute a promotional flyer that you provide us in the welcome package of each participant.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h4 id=&#34;donations-in-kind&#34;&gt;&lt;strong&gt;DONATIONS IN KIND&lt;/strong&gt;&lt;/h4&gt;
&lt;p&gt;The organizations or institutions that wish to be sponsors with donations in kind (the donations CANNOT include publicity of the sponsor), can do so by providing the following services or items:&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;
&lt;p&gt;Photography service during the event.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Video service during the event.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Cafeteria items: coffee, cookies, fruit, sugar, napkins, etc.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Water containers or bottles without publicity from the company providing them.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Exterior furniture: carp, chairs, tables.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Office items: pens, pencils, board markers, post-it, blank paper.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Items for cleaning: soap, paper, trash bags, antibacterial gel.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Any other item can be evaluated.&lt;/p&gt;
&lt;/li&gt;
&lt;/ol&gt;
&lt;p&gt;The donations in kind will be recognized similar to the levels described above based on the estimated amount in cash these donations correspond to.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Code of conduct</title>
      <link>http://comunidadbioinfo.github.io/codigo-de-conducta/</link>
      <pubDate>Tue, 10 Apr 2018 15:09:34 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/codigo-de-conducta/</guid>
      <description>&lt;p&gt;The Community of Software Developers in Bioinformatics (CDSB) is committed to providing a welcoming and free experience harassment for all, regardless of gender, gender identity and expression, age, sexual orientation, disability, physical appearance, body size, race , ethnicity, religion (or lack thereof) or technology options. We do not tolerate harassment of participants of the conference in any way. Language and sexual images are not suitable for any place of the conference, including lectures, workshops, parties, Twitter and other online media. Workshop participants who violate these rules may be punished or expelled from the event at the discretion of the organizers of the workshop.&lt;/p&gt;
&lt;p&gt;This code of conduct applies to all participants, including staff and leadership of CDSB, and applies to all modes of interaction, both in person and online, including project repositories CDSB GitHub and CDSB GitHub, forum discussions CDSB, Slack channels and Twitter.&lt;/p&gt;
&lt;p&gt;CDSB participants accept:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Be considered in speech and actions, actively seek to recognize and respect the boundaries of others in attendance.&lt;/li&gt;
&lt;li&gt;Refrain from behaviors and degrading expressions, discriminatory or harassing. Harassment includes, but is not limited to: deliberate intimidation; stalking; unwanted photo or recording; sustained or deliberate interruption of the talks and other events; inappropriate physical contact; use of sexual imagery or discriminatory comments or jokes; and unwanted sexual attention. If you feel someone has harassed or treated him inappropriately, please report in person to any member of the organizing committee of the workshop.&lt;/li&gt;
&lt;li&gt;Take care of each other. Contact a member of the organizing committee of the workshop if you notice a dangerous situation, someone in distress or violations of this code of conduct, even if they seem inconsequential.&lt;/li&gt;
&lt;li&gt;Use your full name and not an alias in Slack and other internal communication channels such that we can create a secure environment and enforce the code of conduct.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Need help?&lt;/strong&gt;&lt;/p&gt;
&lt;p&gt;If you have any questions or concerns, talk to Heladia Salgado, Alejandro Reyes, Alejandra Medina-Rivera or Leonardo Collado Torres.&lt;/p&gt;
&lt;p&gt;If any of the assistants engages in bullying behavior, the workshop organizers can take any legal action we deem appropriate, including, among others, warn the accused or ask the offender to leave the workshop. (If you feel you have been unjustly accused of violating this code of conduct, you must contact the organizing committee of the workshop with a brief description of your complaint).&lt;/p&gt;
&lt;p&gt;We welcome your comments on this and all other aspects of CDSB events, and we thank you for working with us to make it a safe, pleasant and friendly experience for all involved.&lt;/p&gt;
&lt;p&gt;This code of conduct was adapted from 
&lt;a href=&#34;http://unconf18.ropensci.org/coc.html&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;unconf rOpenSci 2018&lt;/a&gt;&amp;rsquo;s code of conduct  which is licensed under CC BY-SA 4.0. Please review the page for more information about the license and attribution.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Latin American R/BioConductor Developers Workshop 2018</title>
      <link>http://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/</link>
      <pubDate>Thu, 22 Mar 2018 12:40:21 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/</guid>
      <description>&lt;h4 id=&#34;community-of-bioinformatics-software-developers&#34;&gt;Community of Bioinformatics Software Developers&lt;/h4&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;Workshop webpage: 
&lt;a href=&#34;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://comunidadbioinfo.github.io/post/r-bioconductor-developers-workshop-2018/&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Level: &lt;strong&gt;intermediate - advanced&lt;/strong&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Language: &lt;strong&gt;english&lt;/strong&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;When: July 30 - August 3, 2018&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Where: Auditorium of the 
&lt;a href=&#34;http://www.ccg.unam.mx/en&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Center for Genomic Sciences&lt;/a&gt;, Cuernavaca, Mexico&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Twitter: 
&lt;a href=&#34;https://twitter.com/search?f=tweets&amp;amp;q=%23CDSBMexico&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;#CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Facebook: 
&lt;a href=&#34;https://www.facebook.com/CDSBMexico/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;@CDSBMexico&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;GitHub: 
&lt;a href=&#34;https://github.com/ComunidadBioInfo/R-BioConductor-Developers-Workshop-2018&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://github.com/ComunidadBioInfo/R-BioConductor-Developers-Workshop-2018&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/registro&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Register&lt;/a&gt;&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;requirements&#34;&gt;Requirements&lt;/h2&gt;
&lt;p&gt;Requirements prior knowledge&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Participants should have basic knowledge of programming language R: variable assignment, reading files: read.csv, read.delim, read.table; data structures: matrix, dataframe, list; data types: character, numeric, factor, logical, etc; installation and use of packages.&lt;/li&gt;
&lt;li&gt;R: know how to install packages&lt;/li&gt;
&lt;li&gt;RStudio: know how to use.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Technical requirements&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Personal computer&lt;/li&gt;
&lt;li&gt;Minimum 8GB RAM, a mouse and sufficient disk space for text files and image files. Administrator privileges to install and run utilities such as RStudio.&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;introduction&#34;&gt;Introduction&lt;/h2&gt;
&lt;p&gt;In recent years, biology has seen a rise in the use of technologies that enable high-throughput, quantitative, data-rich profiling of cellular states. As a result, the field now faces computational challenges to analyze such data. The 
&lt;a href=&#34;https://cran.r-project.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;R&lt;/a&gt;/
&lt;a href=&#34;http://bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor&lt;/a&gt; project is an open source, open development software platform that provides tools to translate complex data sets into biological knowledge.&lt;/p&gt;
&lt;p&gt;This workshop is aimed at students and researchers interested in the analysis of biological data. We encourage applications from experts in diverse disciplines, including but not limited to biologists, bioinformaticians, data scientists, software engineers and programmers and R users at large. The main goals of the workshop are:&lt;/p&gt;
&lt;ol&gt;
&lt;li&gt;
&lt;p&gt;Teach participants the principles of reproducible data science through the development of R/Bioconductor packages.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Turn bioinformatics software users into bioinformatics software developers.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Foster the exchange of expertise and establish multidisciplinary collaborations.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Create a community of Latin American scientists committed to the development of software and computational pipelines for biological data analysis.&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Help train bioinformatics instructors that can continue to grow in their local communities.&lt;/p&gt;
&lt;/li&gt;
&lt;/ol&gt;
&lt;p&gt;This workshop is part of a long-term project to create a community of developers from Latin America. We hope to hold regular meetings in the future (similar to BioC, EuroBioc and BioCAsia) where attendees present their own software contributions. To provide a welcoming environment please follow our code of conduct.&lt;/p&gt;
&lt;h2 id=&#34;program&#34;&gt;Program&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;https://github.com/ComunidadBioInfo/rbioc18&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Materials&lt;/a&gt;&lt;/p&gt;
&lt;table&gt;
&lt;thead&gt;
&lt;tr&gt;
&lt;th&gt;&lt;strong&gt;Day 1: July 30, 2018&lt;/strong&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;th&gt;&lt;/th&gt;
&lt;/tr&gt;
&lt;/thead&gt;
&lt;tbody&gt;
&lt;tr&gt;
&lt;td&gt;09:00 - 10:00&lt;/td&gt;
&lt;td&gt;Inauguration in the main auditorium&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00 - 10:30&lt;/td&gt;
&lt;td&gt;Keynote Lecture I: From learning to using to teaching to developing R&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://lcolladotor.github.io/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30 - 11:00&lt;/td&gt;
&lt;td&gt;Talk I: Example of Bioinformatics in Mexico&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://web.ecologia.unam.mx/index.php/investigadores/daniel-pinero&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Daniel Piñero&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00 - 11:20&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:20 - 12:20&lt;/td&gt;
&lt;td&gt;Creating a package&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://alejandroreyes.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:20 - 12:40&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:40 - 14:00&lt;/td&gt;
&lt;td&gt;Version control with git and GitHub&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.linkedin.com/in/selenefernandez/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Selene L. Fernandez-Valverde&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00 - 15:30&lt;/td&gt;
&lt;td&gt;Lunch break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30 - 16:15&lt;/td&gt;
&lt;td&gt;Open source software projects and collaborative development&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.linkedin.com/in/selenefernandez/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Selene L. Fernandez-Valverde&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;16:45 - 17:30&lt;/td&gt;
&lt;td&gt;Package documentation&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://alejandroreyes.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;17:30 -&lt;/td&gt;
&lt;td&gt;Welcome cocktail&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 2: July 31, 2018&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;9:00 - 10:00&lt;/td&gt;
&lt;td&gt;Keynote Lecture II&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00 - 10:30&lt;/td&gt;
&lt;td&gt;Talk II: Example of Bioinformatics in Mexico: Using R-Shiny in Agrobiodiversity&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://github.com/APonce73&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Ponce-Mendoza&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30 - 11:00&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00 - 12:15&lt;/td&gt;
&lt;td&gt;Best practices for writing efficient functions&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:15 - 13:45&lt;/td&gt;
&lt;td&gt;Bioconductor: core package, common objects and extending classes&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.somos.unicamp.br/professores/view/4722&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Benilton de Sá Carvalho&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;13:45 - 15:30&lt;/td&gt;
&lt;td&gt;Lunch break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30 - 17:30&lt;/td&gt;
&lt;td&gt;S4 - system for object oriented programming&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;17:30 - 18:30&lt;/td&gt;
&lt;td&gt;Poster session&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 3: August 1, 2018&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;9:00 - 10:00&lt;/td&gt;
&lt;td&gt;Collaborative project organization and introduction&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://loop.frontiersin.org/people/416212/overview&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Daniela Ledezma-Tejeida&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00 - 10:30&lt;/td&gt;
&lt;td&gt;Vignette writing with markdown/BiocStyle&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.somos.unicamp.br/professores/view/4722&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Benilton de Sá Carvalho&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30 - 10:50&lt;/td&gt;
&lt;td&gt;Coffee break/Event Photo (to be confirmed)&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:50 - 11:30&lt;/td&gt;
&lt;td&gt;Unit testing and R CMD check&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30 - 12:10&lt;/td&gt;
&lt;td&gt;Rcpp (Adding C/C++ code to R packages)&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.somos.unicamp.br/professores/view/4722&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Benilton de Sá Carvalho&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:10 - 12:30&lt;/td&gt;
&lt;td&gt;Break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:30 - 14:00&lt;/td&gt;
&lt;td&gt;Debugging and Parallelization&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00 - 15:30&lt;/td&gt;
&lt;td&gt;Lunch break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30 - 17:30&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 4: August 2, 2018&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;9:00 - 10:00&lt;/td&gt;
&lt;td&gt;Keynote Lecture IV&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;https://scholar.google.com/citations?user=44vQTS4AAAAJ&amp;amp;hl=en&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Benilton Carvalho&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00 - 10:30&lt;/td&gt;
&lt;td&gt;Talk III: RLadies Community Experience&lt;/td&gt;
&lt;td&gt;
&lt;a href=&#34;http://www.teresa-ortiz.com/eng&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Teresa Ortíz&lt;/a&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30 - 11:00&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00 - 14:00&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;14:00 - 15:30&lt;/td&gt;
&lt;td&gt;Lunch break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;15:30 - 17:30&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;&lt;strong&gt;Day 5: August 3, 2018&lt;/strong&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;9:00 - 10:00&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project and recovery from La Palapa&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:00 - 10:30&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;10:30 - 11:00&lt;/td&gt;
&lt;td&gt;Coffee break&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:00 - 11:30&lt;/td&gt;
&lt;td&gt;Working on a Collaborative Project&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;11:30 - 12:30&lt;/td&gt;
&lt;td&gt;Presentations of collaborative projects&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td&gt;12:30 - 13:00&lt;/td&gt;
&lt;td&gt;Closing remarks and community building&lt;/td&gt;
&lt;td&gt;&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;h2 id=&#34;instructors&#34;&gt;Instructors:&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.roswellpark.org/martin-morgan&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Martin Morgan&lt;/a&gt; (Roswell Park Comprehensive Cancer Center, Buffalo, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://scholar.google.com/citations?user=44vQTS4AAAAJ&amp;amp;hl=en&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Benilton Carvalho&lt;/a&gt; (University of Campinas, Campinas, Brazil)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.linkedin.com/in/selenefernandez/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Selene L. Fernandez-Valverde&lt;/a&gt; (National Laboratory of Genomics for Biodiversity, Irapuato, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;organizing-committee&#34;&gt;Organizing committee:&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://www.linkedin.com/in/heladia-salgado-bb122954/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Heladia Salgado&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://lcolladotor.github.io&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Leonardo Collado-Torres&lt;/a&gt; (Lieber Institute for Brain Development, Baltimore, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://liigh.unam.mx/amedina/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandra Medina-Rivera&lt;/a&gt; (International Laboratory for Human Genome Research, Juriquilla, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://alejandroreyes.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Alejandro Reyes&lt;/a&gt; (Dana-Farber Cancer Institute, Boston, USA)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Delfino García&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;https://loop.frontiersin.org/people/416212/overview&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Daniela Ledezma-Tejeida&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;
&lt;a href=&#34;http://schatzlab.cshl.edu/people/lgomezro/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Laura Gómez&lt;/a&gt; (Center for Genomic Sciences, Cuernavaca, Mexico)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h2 id=&#34;code-of-conductcodigo-de-conducta&#34;&gt;
&lt;a href=&#34;../../codigo-de-conducta/&#34;&gt;Code of Conduct&lt;/a&gt;&lt;/h2&gt;
&lt;h2 id=&#34;sponsors&#34;&gt;Sponsors&lt;/h2&gt;
&lt;p&gt;
&lt;a href=&#34;../../niveles-de-patrocinio/&#34;&gt;Become our &lt;strong&gt;sponsor&lt;/strong&gt;&lt;/a&gt;&lt;/p&gt;
&lt;table width=&#34;100%&#34; style=&#34;margin-bottom: 0px;&#34; border=&#34;0&#34; &gt;
&lt;tbody style=&#34;border-bottom: none;&#34; &gt;
&lt;tr &gt;
&lt;td width=&#34;20%&#34; style=&#34;border-top: none;&#34; &gt;[![](/img/SoIBio_logo_HR-Web-e1524580239187.png)](http://www.soibio.org)
&lt;/td&gt;
&lt;td width=&#34;30%&#34; style=&#34;border-top: none;&#34; &gt;[![Centro de Ciencias Genómicas UNAM](/img/CCG_Logo_HR-300x114.png)](http://www.ccg.unam.mx)
&lt;/td&gt;
&lt;td width=&#34;35%&#34; style=&#34;border-top: none;&#34; &gt;[![](/img/LCG_Logo_HR-white.png)](http://www.lcg.unam.mx)
&lt;/td&gt;
&lt;td width=&#34;15%&#34; style=&#34;border-top: none;&#34; &gt;[![](/img/logo-liigh-unam.png)](http://liigh.unam.mx/)
&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
&lt;table &gt;
&lt;tbody style=&#34;border: none;&#34; &gt;
&lt;tr &gt;
&lt;td width=&#34;30%&#34; style=&#34;border-top: none;&#34; &gt;[![](/img/RConsortium_Horizontal_Pantone-768x173.png)](https://www.r-consortium.org/)
&lt;/td&gt;
&lt;td style=&#34;border-top: none;&#34; &gt;[![](/img/wintergenomics-1.png)](http://wintergenomics.com/)
&lt;/td&gt;
&lt;td style=&#34;border-top: none;&#34; &gt;
&lt;/td&gt;
&lt;td style=&#34;border-top: none;&#34; &gt;
&lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
</description>
    </item>
    
    <item>
      <title>2018 International Workshop on Bioinformatics</title>
      <link>http://comunidadbioinfo.github.io/post/talleres-internacionales-de-bioinformatica-2018/</link>
      <pubDate>Wed, 21 Mar 2018 18:12:26 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/talleres-internacionales-de-bioinformatica-2018/</guid>
      <description>&lt;p&gt;&lt;strong&gt;The National Node of Bioinformatics (NNB-UNAM) and the Community of Bioinformatics Software Developers (CDSB) invite you to&lt;/strong&gt;&lt;/p&gt;
&lt;h3 id=&#34;tib2018-r-para-todos&#34;&gt;TIB2018: R para todos&lt;/h3&gt;
&lt;h3 id=&#34;heading&#34;&gt;&amp;amp;&lt;/h3&gt;
&lt;h3 id=&#34;latin-american-rbioconductordevelopers-workshop&#34;&gt;Latin American R/Bioconductor Developers Workshop&lt;/h3&gt;
&lt;p&gt;&lt;strong&gt;UNAM Center for Genomic Sciences (CCG-UNAM) in Cuernavaca Morelos, Mexico.&lt;/strong&gt;
&lt;strong&gt;From July 30 to August 3, 2018&lt;/strong&gt;&lt;/p&gt;
&lt;p&gt;This year, we decided to join efforts to promote the development of skills in the programming language R, under the slogan  &lt;strong&gt;&amp;ldquo;Learn R and do community&amp;rdquo;&lt;/strong&gt; .&lt;/p&gt;
&lt;p&gt;In the world of data analysis  &lt;strong&gt;R&lt;/strong&gt;  and  &lt;strong&gt;Python&lt;/strong&gt;  they are positioned as programming languages fastest growing.&lt;/p&gt;
&lt;p&gt;The reasons:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;They are easy to learn&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Specialized libraries offer advanced statistics.&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Why have we chosen R?&lt;/p&gt;
&lt;p&gt;It is ideal for  &lt;strong&gt;non - programmers&lt;/strong&gt;  and has really powerful libraries.&lt;/p&gt;
&lt;p&gt;Our teachers are researchers, postdocs and academic technicians with extensive experience in the area of ​​domestic and foreign institutions. Most of them are certified as Software Carpentry certified instructors, who trained in the best practices of teaching computer science research.&lt;/p&gt;
&lt;p&gt;The workshops are organized by:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;
&lt;p&gt;NNB-UNAM, Mexican node EMBNet (European Molecular Biology network)&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;
&lt;p&gt;Community of Bioinformatics Software Developers (CDSB)&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
&lt;h4 id=&#34;workshops&#34;&gt;Workshops&lt;/h4&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/t1-taller-de-introduccion-a-r-y-r-studio/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T1: Introduction workshop R and R Studio&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/t2-analisis-exploratorio-y-estadistico-de-datos-biologicos-usando-r/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T2: Exploratory and statistical analysis of biological data using R &lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/t3-analisis-exploratorio-de-genes-y-expresion-diferencial/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T3: Workshop RNA-Seq: Exploratory analysis of genes and differential expression&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/t4-taller-de-ngs-ensamble-y-anotacion-de-genomas/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;T4: Workshop NGS: Assembly and Genome Annotation&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;
&lt;a href=&#34;http://congresos.nnb.unam.mx/TIB2018/registro&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Register&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Aviso de Privacidad para la Protección de Datos Personales</title>
      <link>http://comunidadbioinfo.github.io/aviso-de-privacidad/</link>
      <pubDate>Tue, 13 Mar 2018 17:23:16 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/aviso-de-privacidad/</guid>
      <description>&lt;p&gt;See version in Spanish. This privacy notice is for those of you in Mexico.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Bioinformatics, a field on the rise in the world</title>
      <link>http://comunidadbioinfo.github.io/post/la-bioinformatica-una-disciplina-en-auge-en-el-mundo/</link>
      <pubDate>Tue, 06 Mar 2018 20:49:18 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/post/la-bioinformatica-una-disciplina-en-auge-en-el-mundo/</guid>
      <description>&lt;p&gt;La Bioinformática es un área interdisciplinaria en la que convergen las tecnologías de la información y las comunicaciones con las ciencias de la vida, donde los recursos computacionales y humanos asisten al análisis de cantidades enormes de datos biológicos, para extraer de ellos información valiosa y obtener resultados con impactos beneficiosos en la salud humana o animal (&lt;strong&gt;González&lt;/strong&gt; &lt;strong&gt;Hernández&lt;/strong&gt; &lt;strong&gt;D&lt;/strong&gt;**., 2007).**&lt;/p&gt;
&lt;p&gt;Desde la segunda mitad del siglo XX, la biología ha tenido una relación creciente con las ciencias de la información. Su relación se inicia debido al constante impulso del hombre por saber de qué estamos hechos, y fue por allá de 1956 con la secuenciación de la primera proteína por Margaret O. Dayhoff. A partir de entonces, con la constante producción de información biológica, la cual crecía a un ritmo lento comparado con el actual volumen de generación de datos, se creó la necesidad de recopilar y organizar toda la información generada a partir de dichos proyectos de secuenciación, surgiendo así, la primera base de datos con información biológica llamada Protein Data Bank (PDB) (Benítez Páez A, Cárdenas Brino S, 2010).&lt;/p&gt;
&lt;p&gt;Esa relación incipiente de las ciencias de la vida con las ciencias de la computación ha dado origen a una disciplina que ha cobrado vida en los últimos años: la bioinformática.&lt;/p&gt;
&lt;p&gt;Los mayores avances en la bioinformática acontecieron en años posteriores a la creación de la primera base de datos, y fue con la generación de algoritmos matemáticos para el análisis de secuencias, así como también, la creación y el impuso dado a las bases de datos y herramientas para el análisis de secuencias con un impacto a &lt;em&gt;nivel global&lt;/em&gt;.&lt;/p&gt;
&lt;p&gt;&lt;img src=&#34;http://comunidadbioinfo.github.io/img/Clustalw_multiple_alignment-768x408.png&#34; alt=&#34;&#34;&gt;&lt;/p&gt;
&lt;p&gt;Además, con la creación del consorcio para la ejecución del proyecto de secuenciación del genoma humano (Human Genome, HUGO), en 1993, se inició la era genómica. Siendo la decodificación del genoma humano un proyecto tan ambicioso, que otros consorcios se crearon con el fin de secuenciar los primeros genomas no virales. En 1996, &lt;em&gt;S. cerevisiae&lt;/em&gt; fue el primer genoma eucariota secuenciado. En 1995 y 1997, respectivamente, los genomas de &lt;em&gt;Haemophilus influenzae&lt;/em&gt; y &lt;em&gt;Escherichia coli&lt;/em&gt; fueron los primeros genomas bacterianos publicados. Entre los años 1998 y 2000, se tuvieron los genomas secuenciados de &lt;em&gt;Caenorhabditis elegans, Pseudomonas aeruginosa, Drosophila melanogaster&lt;/em&gt; y &lt;em&gt;Arabidopsis thaliana&lt;/em&gt;. En el año 2003, se finalizó la secuencia definitiva del genoma humano y, este hecho se logró gracias a la proyección y explotación del potencial de la industria biotecnológica.&lt;/p&gt;
&lt;p&gt;Como consecuencia, todos los avances tecnológicos destinados al campo de la genómica lograron proyectar a la comunidad científica hacia la secuenciación del genoma de cualquier organismo de interés científico o económico. Hoy en día, existen más de 12,574 genomas de bacterias completamente secuenciados y más de 65,142 proyectos en curso (GOLD Database, 
&lt;a href=&#34;https://gold.jgi.doe.gov/index&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;https://gold.jgi.doe.gov/index&lt;/a&gt; release v.6).&lt;/p&gt;
&lt;p&gt;La gran cantidad de información generada a partir de los múltiples proyectos de secuenciación hizo que las bases de datos crecieran a un ritmo acelerado y casi insostenible. Al mismo tiempo, el enorme volumen de datos conlleva a que el número de herramientas de análisis y algoritmos computacionales surjan al mismo ritmo para poder extraer un conocimiento tangible que permita dar un significado a la diversidad biológica de nuestro ecosistema.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>About us</title>
      <link>http://comunidadbioinfo.github.io/quienes-somos/</link>
      <pubDate>Thu, 22 Feb 2018 17:07:10 +0000</pubDate>
      <guid>http://comunidadbioinfo.github.io/quienes-somos/</guid>
      <description>&lt;p&gt;The Community of Software Developers in Bioinformatics, stems from the concern for encouraging the participation and collaboration of people specializing in Bioinformatics and Genomics, to contribute or bring in free software development internationally.&lt;/p&gt;
&lt;p&gt;The Community is convinced that, through courses, workshops, conferences, and other technological means, can strengthen the skills of its members to participate in development projects software, or undertake the development of new software quality, always promoting the spirit of cooperation and integration.&lt;/p&gt;
&lt;p&gt;&lt;em&gt;What do we believe in ?&lt;/em&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Objectivity and neutrality: Members of the community, our colleagues deserve the truth and real knowledge, we do not allow ourselves to deceive them.&lt;/li&gt;
&lt;li&gt;Innovation: We continually work to be at the forefront and inspire those around us with new ideas.&lt;/li&gt;
&lt;li&gt;We do not believe in borders: We live in a globalized world, we care about connecting with what happens beyond.&lt;/li&gt;
&lt;li&gt;Passion and perfection: We work with passion and perfection in everything we do to develop quality software.&lt;/li&gt;
&lt;li&gt;Open Collaboration: As always we invite the community to collaborate in our initiatives, we also seek to collaborate and add third-party initiatives.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;&lt;strong&gt;Our objectives:&lt;/strong&gt;&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;Create a large community of software developers in bioinformatics&lt;/li&gt;
&lt;li&gt;Create links with other communities: 
&lt;a href=&#34;http://congresos.nnb.unam.mx/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;TIBs&lt;/a&gt;, 
&lt;a href=&#34;http://www.soibio.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;SoIBio&lt;/a&gt;, 
&lt;a href=&#34;http://bioconductor.org/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Bioconductor&lt;/a&gt;&lt;/li&gt;
&lt;li&gt;Recruit talent&lt;/li&gt;
&lt;li&gt;Create content for programming courses and creating packages in R, Python, C, Perl etc.&lt;/li&gt;
&lt;li&gt;Maintain repository for sharing software made by our 
&lt;a href=&#34;https://github.com/comunidadBioInfo&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;community via GitHub&lt;/a&gt;.&lt;/li&gt;
&lt;/ul&gt;
</description>
    </item>
    
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