National Institute of General Medical Sciences

All

22 repositories

NIGMS-Sandbox
Public
Collection of cloud-based biomedical data science learning modules funded by the National Institute of General Medical Sciences at the NIH
bioinformatics google-cloud-platform life-sciences nih
Shell
•13•56•0•1•Updated Dec 26, 2024Dec 26, 2024
Consensus-Pathway-Analysis-in-the-Cloud
Public
Consensus pathway analysis module developed by the University of Nevada at Reno
HTML
•2•1•0•0•Updated Dec 26, 2024Dec 26, 2024
RNA-Seq-Differential-Expression-Analysis
Public
RNAseq workflow run using Snakemake on Google Cloud Platform, developed as part of the NIH NIGMS Sandbox
Jupyter Notebook
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MIT License
•1•2•0•0•Updated Dec 24, 2024Dec 24, 2024
Biomedical-Imaging-Analysis-using-AI-ML-Approaches
Public
Machine Learning module for cloud-based analyses developed as part of the NIGMS Sandbox Project
aws machine-learning computer-vision deep-learning gcp image-processing artificial-intelligence neural-networks cloud-computing data-analysis
Jupyter Notebook
•3•4•0•0•Updated Dec 16, 2024Dec 16, 2024
Proteome-Quantification
Public
Secondary analysis of Proteomics data in R, developed by the University of Arkansas for Medical Sciences for the NIH NIGMS Sandbox project.
aws bioinformatics jupyter-notebook gcp data-visualization cloud-computing proteomics mass-spectrometry data-preprocessing r-programming
Jupyter Notebook
•4•0•0•0•Updated Dec 2, 2024Dec 2, 2024
Fundamentals-of-Bioinformatics
Public
Introduction to bioinformatics command line tools on the cloud, developed by Dartmouth College
bash aws bioinformatics genomics command-line gcp cloud-computing genome-annotation google-cloud-platform introduction
HTML
•3•6•0•0•Updated Nov 21, 2024Nov 21, 2024
DNA-Methylation-Sequencing-Analysis-with-WGBS
Public
Jupyter Notebook
•2•9•0•0•Updated Nov 21, 2024Nov 21, 2024
Analysis-of-Biomedical-Data-for-Biomarker-Discovery
Public
R-based module that uses machine learning in biomarker discovery
aws bioinformatics linear-regression gcp cloud-computing logistic-regression proteomics r-programming biomarker-discovery nih-nigms-sandbox
HTML
•4•0•0•0•Updated Nov 21, 2024Nov 21, 2024
Metagenomics-Analysis-of-Biofilm-Microbiome
Public
Jupyter Notebook
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GNU General Public License v3.0
•3•5•0•0•Updated Nov 21, 2024Nov 21, 2024
Integrating-Multi-Omics-Datasets
Public
Multi-omics module that includes RNAseq, Epigenetics, and integrated multi-omics analyses developed as part of the NIGMS Sandbox project
Jupyter Notebook
•1•3•0•0•Updated Nov 21, 2024Nov 21, 2024
Workshop-Tutorials
Public
Jupyter Notebook
•0•0•0•0•Updated Nov 18, 2024Nov 18, 2024
Transcriptome-Assembly-Refinement-and-Applications
Public
Jupyter Notebook
•3•0•0•0•Updated Nov 15, 2024Nov 15, 2024
Introduction-to-Data-Science-for-Biology
Public
Python-based machine learning and data science module from SFSU developed for the NIGMS Sandbox project
aws data-science machine-learning bioinformatics gcp cloud-computing decision-trees model-evaluation health-data-analysis covid-19-data
Jupyter Notebook
•5•6•0•0•Updated Nov 15, 2024Nov 15, 2024
ATAC-Seq-and-Single-Cell-ATAC-Seq-Analysis
Public
ATAC-seq and scATAC-seq module developed by the University of Nebraska Medical Center
Jupyter Notebook
•4•6•0•1•Updated Nov 13, 2024Nov 13, 2024
AWS-HealthOmics-Module-Template
Public
Template repo for NIGMS Sandbox modules that use AWS HealthOmics
MIT License
•0•0•0•0•Updated Nov 12, 2024Nov 12, 2024
NIGMS-Sandbox-Repository-Template
Public template
HTML
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MIT License
•0•0•0•0•Updated Nov 12, 2024Nov 12, 2024
nigms-sandbox-testing-jpinney32
Public
nigms-sandbox-nigms-sandbox-testing-NIGMS-Sandbox-Repository-Template created by GitHub Classroom
HTML
•
MIT License
•2•0•0•1•Updated Nov 4, 2024Nov 4, 2024
nigms-sandbox-testing-LoganColeNIH
Public
nigms-sandbox-nigms-sandbox-testing-NIGMS-Sandbox-Repository-Template created by GitHub Classroom
HTML
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MIT License
•2•0•0•1•Updated Nov 4, 2024Nov 4, 2024
nigms-sandbox-nigms-sandbox-testing-NIGMS-Sandbox-Repository-Template
Public
nigms-sandbox-nigms-sandbox-testing-NIGMS-Sandbox-Repository-Template created by GitHub Classroom
HTML
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MIT License
•2•0•0•0•Updated Nov 4, 2024Nov 4, 2024
NIGMS-GUI-Dockers
Public
Stores the dockerfiles that are used for GUI
Dockerfile
•0•0•0•0•Updated Oct 22, 2024Oct 22, 2024
HealthOmics-methylseq
Public
nf-core methylseq workflow for AWS HealthOmics
Nextflow
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MIT License
•0•0•0•0•Updated Aug 20, 2024Aug 20, 2024
omx-ecr-helper
Public
NIGMS HealthOmics ECR Helper
TypeScript
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MIT License
•0•0•0•0•Updated Aug 7, 2024Aug 7, 2024