moqri's Stars
cytoscape/cytoscape.js
Graph theory (network) library for visualisation and analysis
scverse/scvi-tools
Deep probabilistic analysis of single-cell and spatial omics data
COMBINE-lab/salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
tanghaibao/goatools
Python library to handle Gene Ontology (GO) terms
hemberg-lab/scRNA.seq.course
Analysis of single cell RNA-seq data course
chanzuckerberg/cellxgene
An interactive explorer for single-cell transcriptomics data
cytoscape/cytoscape
Cytoscape: an open source platform for network analysis and visualization
opencobra/cobrapy
COBRApy is a package for constraint-based modeling of metabolic networks.
SuLab/WikidataIntegrator
A Wikidata Python module integrating the MediaWiki API and the Wikidata SPARQL endpoint
YosefLab/VISION
Signature Analysis and Visualization for Single-Cell RNA-seq
NVIDIA-Genomics-Research/AtacWorks
Deep learning based processing of Atac-seq data
SysBioChalmers/RAVEN
The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.
Vivianstats/scImpute
Accurate and robust imputation of scRNA-seq data
copasi/COPASI
COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.
lanagarmire/deepimpute
An accurate and efficient deep learning method for single-cell RNA-seq data imputation
lilab-bcb/pegasus
A tool for analyzing trascriptomes of millions of single cells.
lilab-bcb/cumulus
Cloud-based scalable and efficient single-cell genomics workflows
VCCRI/Falco
A quick and flexible single-cell RNA-seq processing framework on the cloud
Daniel-Mietchen/events
Materials related to events I might attend, and to talks I am giving
wikicite/wikicite-data
Extract, transform, and analyze bibliographic data from Wikidata dumps
klarman-cell-observatory/scPlot
Single cell interactive plotting tools
ebi-gene-expression-group/container-galaxy-sc-tertiary
Galaxy container for single cell RNA-Seq tertiary analysis tools
cartof/digitalDLSorter
A pipeline to generate a Deep Nerual Network cell type deconvolution model for bulk RNASeq samples from single cell experiment data
ebi-gene-expression-group/cell-types-analysis
A component in cell type prediction methods analysis workflow.