gsea

zqfang/GSEApy

Gene Set Enrichment Analysis in Python

broadinstitute/ssGSEA2.0

Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)

stemangiola/tidybulk

Brings bulk and pseudobulk transcriptomics to the tidyverse

igordot/msigdbr

MSigDB gene sets for multiple organisms in a tidy data format

nf-core/differentialabundance

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq

JEFworks/liger

Lightweight Iterative Gene set Enrichment in R

kerseviciute/aPEAR

Enrichment Networks for Pathway Enrichment Analysis

xzhoulab/iDEA

Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)

ToledoEM/msigdf

Molecular Signatures Database (MSigDB) in a data frame

genescf/GeneSCF

Gene Set Clustering based on Functional annotation

GSEA-MSigDB/GSEA2.jl

Julia implementation of the next generation GSEA 🏔️

lianos/sparrow

Take command of your set enrichment analyses.

gencorefacility/r-notebooks

Gene Set Enrichment Analysis and Over Representation Analysis analysis using R

nasqar/ClusterProfShinyGSEA

A web-based application to perform Gene Set Enrichment Analysis (GSEA) using clusterProfiler and shiny R libraries

shbrief/GenomicSuperSignature

Interpretation of RNAseq experiments through robust, efficient comparison to public databases

krassowski/gsea-api

Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)

NKI-CCB/flexgsea-r

Flexible gene set enrichment analysis

person-c/easybio

Comprehensive Single-Cell Annotation and Transcriptomic Analysis Toolkit

CSBiology/TMEA

Thermodynamically Motivated Enrichment Analysis (TMEA) is a new approach to gene set enrichment analysis.

guokai8/richR

Function Enrichment analysis and Network construction

NicolasH2/gggsea

GSEA plots in ggplot2

sib-swiss/enrichment-analysis-training

Course material for Enrichment analysis course by SIB

matteocereda/GSECA

Gene Set Enrichment Class Analysis for heterogeneous RNA sequencing data

IbrahimElzahaby/MSc_Thesis

Computational protemics analysis of cancer cell-lines at the level of single-cells

noamteyssier/idea

Integrated Differential Expression and Annotation

moritzmadern/BulkRNAseqAnalysis_from_countMatrix

R Markdown script to perform bioinformatic analysis of RNA-seq raw count matrices, including DE-testing via DESeq2 and gene set enrichment analysis (GSEA).

francescopatane96/RNA-seq_Pipeline

Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last module of the project allows you to use clusterprofiler in order to perform ORA and GSEA analysis (over-representation analysis and gene set enrichment analysis) using GeneOntology (GO), disease ontology (DO), KEGG, reactome eg...

kn-bibs/pathways-analysis

Testing, development environment for a new project of KN BIBS

mcrewcow/BaranovLab

Main projects during my current position in Petr Baranov Lab | Schepens Eye Research Institute, Mass General Hospital, Harvard Medical School

MolecularPathologyLab/SubtypeExploreR

Web application that enables users to compare the expression of genes or enrichment of gene sets between different molecular subtypes of colorectal cancer

awakenedhaki/weaver

Gene set enrichment network visualization

BNTechie/Bioinformatics

Differential Expression Analysis of protein, Gene set enrichment analysis, Multi-omic factor analysis, Pathway analysis, WGCNA

GSEA-MSigDB/CLSGCTGMT.jl

Read .cls, .gct, and .gmt 💾

Mohammed-Hassan3/RNASeqMelanoma

Uzezi93/Pleiotropy-and-Local-Adaptation-Silverleaf-Sunflower

Analysis pipeline to examine how gene pleiotropy influences local adaptation in Silverleaf Sunflowers