gene-set-enrichment

There are 0 repository under gene-set-enrichment topic.

tanghaibao / goatools
Python library to handle Gene Ontology (GO) terms
bioinfomatics fdr fdr-benjamini fisher-tests gene-ontology gene-set-enrichment genomics goslim-terms holm-sidak sidak
Language:Python 782
rcastelo / GSVA
Gene set variation analysis
gene-set-enrichment genomics pathway-enrichment-analysis
Language:R 200
theislab / diffxpy
Differential expression analysis for single-cell RNA-seq data.
differential-expression single-cell-rna-seq gene-set-enrichment bioinformatics transcriptomics tensorflow
Language:Python 193
epigen / enrichment_analysis
A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, pycisTarget and RcisTarget.
bioinformatics genomic-regions enrichment-analysis atac-seq biomedical-data-science chip-seq gene-set-enrichment gene-sets rna-seq visualization pipeline snakemake workflow motif-enrichment-analysis
Language:Python 32
ELTEbioinformatics / mulea
mulea - an R package for enrichment analysis using various ontologies and empirical false discovery rate
bioconductor-package enrichment enrichment-analysis functional-enrichment-analysis gene-set-enrichment ontologies r-package transcriptomics
Language:R 24
GeneSCF
genescf / GeneSCF
Gene Set Clustering based on Functional annotation
gene enrichment-analysis gsea geneontology kegg-pathway reactome-pathway cancer real-time up-to-date download-pathways download-ontology functional-enrichment functional-enrichment-analysis gene-set-enrichment gene-set-clustering gene-set-analysis enrichment-testing
Language:Perl 21
GSEA-MSigDB / GSEA2.jl
Julia implementation of the next generation GSEA 🏔️
bioinformatics gene computational-biology gene-set gene-set-analysis gene-set-enrichment gsea julia msigdb rna single-cell cli command-line-interface command-line-tool
Language:Julia 21
Acare / hacksig
A Tidy Framework to Hack Gene Expression Signatures
gene-expression-signatures gene-set-enrichment r-package rstats
Language:R 19
krassowski / gsea-api
Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)
gsea cuda pandas python3 gene-set-enrichment bioinformatics transcriptomics pathway-analysis gene-sets enrichment
Language:Python 15
varemo / piano
piano - An R/Bioconductor package for gene set analysis
bioconductor bioconductor-package bioinformatics gene-set-enrichment r r-package transcriptomics
Language:R 13
NKI-CCB / flexgsea-r
Flexible gene set enrichment analysis
gsea gene-expression pathway-analysis gene-set-enrichment r bioinformatics
Language:R 10
malhamdoosh / EGSEA
This package implements the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing.
bioinformatics-pipeline pathway-analysis gene-set-enrichment bioconductor-package
Language:R 9
xzhoulab / iDEA-Analysis
differential-expression gene-set-enrichment single-cell-rna-seq
Language:R 8
euxhenh / grinch
A library for differential expression and gene set enrichment analysis based on hydra and pydantic.
clustering differential-expression-analysis gene-set-enrichment marker-genes single-cell single-cell-analysis
Language:Python 3
KatrionaGoldmann / omicAnnotations
Package to gather gene information, annotations, and functions
gene-annotation gene-function gene-set-enrichment snp-annotation snp-associations
Language:R 3
aedanr / PhD-Project-2.4
Assessing dIfferential expression, dispersion, distribution analyses on TCGA tumour-normal RNA-seq datasets
rna-seq-analysis gene-set-enrichment differential-expression differential-variability differential-dispersion differential-distribution cancer-genomics
Language:R 2
asusete / askoR
AskoR pipeline: analysis of gene expression data, using edgeR.
rnaseq transcriptomics differential-expression gene-expression gene-set-enrichment multiple-comparisons coexpression
Language:R 2
bio2bel / msig
Integration of pathway-related information from MSigDB in BEL
pathway-analysis msigdb gene-set-enrichment msig
Language:Python 2
fcomitani / tapir
Transcriptiome Analysis in Python Imported from R
transcriptomics gene-expression statistics plotting differential-expression gene-set-enrichment survival-analysis
Language:Python 2
kn-bibs / pathways-analysis
Testing, development environment for a new project of KN BIBS
pathway-analysis pathways bioinformatics gene-set-enrichment gsea gene-expression differential-expression
Language:Python 2
sartorlab / chipenrich.data
Experimental version of data package associated with chipenrich
chip-seq gene-set-enrichment gene-sets
Language:R 2
DBRetina / DBRetina
DBRetina python package
enrichment-analysis gene gene-set-enrichment gene-sets genes ora pathways deduplication gsea over-representation-analysis set-cover
Language:C++ 1
brioche
dpohanlon / brioche
Bayesian tests for set enrichment :bread:
bioinformatics enrichment-analysis gene-set-enrichment genetics statistics
Language:Python 1
dbespiatykh / gopiscator
GOpiscator is a command-line tool for performing gene set enrichment analysis using the Gene Ontology (GO) database.
enrichment-analysis gene-ontology gene-set-enrichment command-line-tool
Language:Python 0
ELTEbioinformatics / GMT_files_for_mulea
GMT files for the mulea R package
gene-set-enrichment gene-sets ontologies
Language:Python 0
NicolasH2 / gseaCondenser
condense GSEA terms
gene-set gene-set-analysis gene-set-clustering gene-set-enrichment gsea
Language:R 0
ok-gitr / geneSetVis
gene-set enrichment visualization.
r gene-set-enrichment shiny
Language:R 0