update library

_data/tool_and_resource_list.yml

@@ -1,102 +1,101 @@
-- description: 'A tutorial with an overview of PRoteomics IDEntification (PRIDE) database,
+- Topics: Proteomics, Data sharing
+  description: 'A tutorial with an overview of PRoteomics IDEntification (PRIDE) database,
     how to search and download datasets from PRIDE and an introduction of PRIDE tools:
     Proteome Xchange Submission Tool and PRIDE Inspector (to assess the quality of
     a dataset). '
   name: PRIDE - Quick tour
   provider: EMBL-EBI
   related_pages:
-  - proteomics
-  - data_sharing
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/pride-quick-tour/submitting-data-to-pride/
-- description: A webinar covering proteomics data submission process including a demo
+- Topics: Data sharing, Proteomics
+  description: A webinar covering proteomics data submission process including a demo
     for Proteome Xchange Submission Tool.
   name: 'PRIDE database: Proteomics data submission, access and visualisation'
   provider: EMBL-EBI
   related_pages:
-  - proteomics
-  - data_sharing
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/pride-database-proteomics-data-submission-access-and-visualisation/
-- description: 'A webinar with an introduction to the proteomes and how to find and
+- Topics: Data collection, Data reuse, Proteomics
+  description: 'A webinar with an introduction to the proteomes and how to find and
     download relevant protein datasets. It also includes a UniProt demonstration to
     find proteomic data with user queries. '
   name: Understanding Proteomes
   provider: EMBL-EBI
   related_pages:
-  - proteomics
-  - data_collection
-  - data_reuse
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/understanding-proteomes/
-- description: 'A webinar with an introduction of ENA, INSDC agreement, the ENA data
+- Topics: Data sharing, Metagenomics
+  description: 'A webinar with an introduction of ENA, INSDC agreement, the ENA data
     and metadata model, how to structure a metagenomic study and submit metagenomics
     data to ENA.  '
   name: Submitting metagenomic data to ENA
   provider: EMBL-EBI
   related_pages:
-  - metagenomics
-  - 'data_sharing '
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/submitting-metagenomic-data-ena/
-- description: 'A workshop covering how to search and retrieve and perform analysis
+- Topics: Data analysis, Data reuse, Metagenomics
+  description: 'A workshop covering how to search and retrieve and perform analysis
     on metagenomic sequencing data from NCBI '
   name: An NCBI Guide to Finding and Analyzing Metagenomic Data
   provider: NCBI
   related_pages:
-  - metagenomics
-  - data_analysis
-  - data_reuse
+  - data_management
   type: Workshop
   url: https://www.nlm.nih.gov/ncbi/workshops/2022-10_Guide-to-Metagenomics/workshop-details.html
-- description: A tutorial with a detailed walkthrough for submitting metagenomics
+- Topics: Data sharing, Metagenomics
+  description: A tutorial with a detailed walkthrough for submitting metagenomics
     data to ENA for analysis by MGnify, highlighting metadata standardization, the
     use of templates like GSC MIxS for contextual information, and submission methods
     through ENA or the MGnify browser
   name: MGnify portal - Submitting metagenomics data to the European Nucleotide Archive
   provider: EMBL-EBI
   related_pages:
-  - metagenomics
-  - 'data_sharing '
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/mgnify-portal/
-- description: A tutorial offering an introduction to Metabolights, a summary of data
+- Topics: Data sharing, Metabolomics
+  description: A tutorial offering an introduction to Metabolights, a summary of data
     submission and retrieval processes, along with additional support resources.
   name: Metabolights - Quick Tour
   provider: EMBL-EBI
   related_pages:
-  - metabolomics
-  - 'data_sharing '
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/metabolights-quick-tour/
-- description: A webinar introducing MetaboLights, metabolomics, and the Metabolomics
+- Topics: Data sharing, Metabolomics
+  description: A webinar introducing MetaboLights, metabolomics, and the Metabolomics
     Standards Initiative (MSI), demonstrating how to navigate the MetaboLights site
     to explore study information and providing a brief overview of study submission.
   name: 'MetaboLights: the home for metabolomics experiments and derived information'
   provider: EMBL-EBI
   related_pages:
-  - metabolomics
-  - 'data_sharing '
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/metabolights-home-metabolomics-experiments-and-derived-information/
-- description: A webinar about open access data, examples of making BioSamples submissions
+- Topics: Data planning
+  description: A webinar about open access data, examples of making BioSamples submissions
     FAIR, open data at IntAct database and how PMC Europe is promoting open access
     publicationg
   name: 'Open with purpose: How and why to make your data open'
   provider: EMBL-EBI
   related_pages:
-  - data_planning
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/open-purpose-how-and-why-make-your-data-open/
-- description: A tutorial about publicly available data and importance of licenses
+- Topics: Data collection, data reuse
+  description: A tutorial about publicly available data and importance of licenses
     to make the data open. Topics covered include data formats, controlled vocabularies,
     ontologies, reporting guidelines, minimum reporting checklists and importance
     of unique identifiers for data artefacts.
   name: Using Publicly available data
   provider: EMBL-EBI
   related_pages:
-  - data_collection
-  - data_reuse
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/using-publicly-available-data/
 - description: 'A tutorial encompassing concepts of data management e.g. the data
@@ -107,28 +106,29 @@
   name: Bringing data to life, Data management for the biomolecular sciences
   provider: EMBL-EBI
   related_pages:
-  - data_planning
-  - data_sharing
-  - data_reuse
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/bringing-data-to-life-data-management/
-- description: 'A webinar with discussion regarding importance of sharing research
+- Topics: Data sharing
+  description: 'A webinar with discussion regarding importance of sharing research
     data and infrastructure available at EMBL-EBI to support sharing. It also describes
     data submission process to IntAct and ComplexPortal. '
   name: 'Open access: Data sharing and submission'
   provider: EMBL-EBI
   related_pages:
-  - data_sharing
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/open-access-data-sharing-and-submission/
-- description: A webinar covering processes of data retrieval and submission to BioStudies.
+- Topics: Data sharing
+  description: A webinar covering processes of data retrieval and submission to BioStudies.
   name: A guide to organising data associated to a publication using BioStudies
   provider: EMBL-EBI
   related_pages:
-  - data_sharing
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/guide-organising-data-associated-publication-using-biostudies/
-- description: '
+- Topics: Data collection, data reuse
+  description: '
 
 
     A workshop teaching biological researchers how to use the command line to search
@@ -138,57 +138,58 @@
     for Biologists
   provider: NCBI
   related_pages:
-  - data_collection
-  - data_reuse
+  - data_management
   type: Workshop
   url: https://ncbiinsights.ncbi.nlm.nih.gov/event/command-line-03-2023/
-- description: 'A workshop demonstrating effective use of python programming, BioPython
+- Topics: Data collection, Data reuse, Data analysis
+  description: 'A workshop demonstrating effective use of python programming, BioPython
     package and Jupyter notebooks to facilitate download, analysis and visualisation
     of data in a reproducible fashion. '
   name: Getting Started with NCBI Data in Python
   provider: NCBI
   related_pages:
-  - data_collection
-  - data_reuse
-  - data_analysis
+  - data_management
   type: Workshop
   url: https://ncbiinsights.ncbi.nlm.nih.gov/event/getting-started-with-ncbi-data-in-python-04-22/
-- description: A tutorial introducing the BioSamples database and the concept of a
+- Topics: Data sharing
+  description: A tutorial introducing the BioSamples database and the concept of a
     biosample. It also provides website navigation tips, and directs users to more
     information on accessing and downloading data from BioSamples.
   name: BioSamples Quick tour
   provider: EMBL-EBI
   related_pages:
-  - data_sharing
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/biosamples-quick-tour/
-- description: What metadata is and why it is important to keep track of this information
+- Topics: Data planning, Data sharing
+  description: What metadata is and why it is important to keep track of this information
     in biological experiments.
   name: Describing data consistently
   provider: EMBL-EBI
   related_pages:
-  - data_planning
-  - data_sharing
+  - data_management
   type: Short Video
   url: https://www.ebi.ac.uk/training/online/courses/bioinformatics-terrified/what-makes-a-good-bioinformatics-database/describing-data-consistently/
-- description: Basic tips on managing and sharing data to maximise its re-use in the
+- Topics: Data planning
+  description: Basic tips on managing and sharing data to maximise its re-use in the
     future.
   name: Tips on managing and sharing data
   provider: EMBL-EBI
   related_pages:
-  - data_planning
+  - data_management
   type: Guide
   url: https://www.ebi.ac.uk/training/online/courses/bioinformatics-terrified/tips-on-managing-and-sharing-data/
-- description: These slides focus on topics such as discipline-specific repositories,
+- Topics: Data planning, Genomics
+  description: These slides focus on topics such as discipline-specific repositories,
     generalist repositories, the FAIRDOM platform, and reproducible models in FAIRDOM.
   name: Data publishing and archival
   provider: ELIXIR Luxembourg
   related_pages:
-  - genomics
-  - data_planning
+  - data_management
   type: Slides
   url: https://zenodo.org/record/5524794
-- description: '
+- Topics: Data collection, Data reuse, Data analysis, Genomics
+  description: '
 
     A workshop covering how to use AWS services like Athena to mine metadata from
     the NCBI SRA database for dataset selection, perform sequence alignment analysis
@@ -197,73 +198,71 @@
   name: An Introduction to NCBI Cloud Computing for Biologists
   provider: NCBI
   related_pages:
-  - genomics
-  - data_collection
-  - data_analysis
-  - data_reuse
+  - data_management
   type: Workshop
   url: https://www.nlm.nih.gov/oet/ed/ncbi/2022_07_cloud.html
-- description: A tutorial covering the importance of data submission, metadata templates
+- Topics: Data sharing, Genomics
+  description: A tutorial covering the importance of data submission, metadata templates
     like MIAME and MINSEQE, submission timelines, and submission locations for functional
     genomics data (e.g. ArrayExpress and GEO). It also discusses secondary databases
     like Expression Atlas.
   name: Functional Genomics - Submitting data
   provider: EMBL-EBI
   related_pages:
-  - genomics
-  - data_sharing
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/functional-genomics-iii-submitting-data/
-- description: A webinar offering an overview of EGA, discussing its controlled access
+- Topics: Data planning, Genomics
+  description: A webinar offering an overview of EGA, discussing its controlled access
     data, the process for gaining access through the Data Access Committee, the use
     of DUO ontology for tagging data, and a live demo of pyEGA3 for downloading permitted
     data.
   name: Introduction to exploring genome-phenome data with EGA
   provider: EMBL-EBI
   related_pages:
-  - genomics
-  - data_planning
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/introduction-exploring-genome-phenome-data-ega/
-- description: A webinar offering a detailed guide on submitting data to the GWAS
+- Topics: Data sharing
+  description: A webinar offering a detailed guide on submitting data to the GWAS
     Catalog, including user account setup, data format conversion, metadata provision,
     and validation using a command-line tool, with an emphasis on explaining metadata
     columns.
   name: Submitting your genome wide association study data to the GWAS Catalog
   provider: EMBL-EBI
   related_pages:
   - genomics
-  - data_sharing
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/submitting-your-genome-wide-association-study-data-gwas-catalog/
-- description: A webinar introducing the background of the European Nucleotide Archive
+- Topics: Data collection, Data reuse, Data sharing
+  description: A webinar introducing the background of the European Nucleotide Archive
     (ENA), data and metadata models, submission and retrieval processes, submission
     methods, and tools for data download.
   name: Nucleotide sequencing data submission and retrieval at the ENA
   provider: EMBL-EBI
   related_pages:
   - genomics
-  - data_collection
-  - data_sharing
-  - data_reuse
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/nucleotide-sequencing-data-submission-and-retrieval-ena/
-- description: A webinar providing an overview of the European Variation Archive (EVA)
+- Topics: Data sharing, Data reuse
+  description: A webinar providing an overview of the European Variation Archive (EVA)
     and its integration with other EBI resources, a live demo of the EVA interface
     for accessing data via web, FTP, or API, and clarification on using SS and RS
     IDs for variant access/reference.
   name: Variant submission and data access at the European Variation Archive
   provider: EMBL-EBI
   related_pages:
-  - data_sharing
-  - data_reuse
+  - data_management
   type: Webinar
   url: https://www.ebi.ac.uk/training/events/variant-submission-and-data-access-european-variation-archive/
-- description: 'A tutorial introducing ArrayExpress and describing Annotare tool and
+- Topics: Data sharing
+  description: 'A tutorial introducing ArrayExpress and describing Annotare tool and
     MAGE-TAB spreadsheet method for data submission. '
   name: ArrayExpress in BioStudies
   provider: EMBL-EBI
   related_pages:
-  - data_sharing
+  - data_management
   type: Online tutorial
   url: https://www.ebi.ac.uk/training/online/courses/arrayexpress-in-biostudies/#vf-tabs__section--overview