Alternatives and similar repositories for fgsea

Users that are interested in fgsea are comparing it to the libraries listed below

• YuLab-SMU / enrichplot
  Visualization of Functional Enrichment Result
  ☆246Updated 2 months ago
• hbctraining / Intro-to-DGE
  ☆202Updated 3 months ago
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆467Updated last week
• immunomind / immunarch
  🧬 immunarch [R package] – Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
  ☆322Updated last year
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆401Updated last month
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆327Updated this week
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆289Updated 3 weeks ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆341Updated this week
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆237Updated 2 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆497Updated last week
• hbctraining / Training-modules
  Materials for short, half-day workshops
  ☆335Updated last month
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆417Updated 2 months ago
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆435Updated last year
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆340Updated 7 months ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆225Updated 2 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆423Updated 4 months ago
• bioFAM / MOFA2
  Multi-Omics Factor Analysis
  ☆342Updated last year
• rcastelo / GSVA
  Gene set variation analysis
  ☆221Updated 2 months ago
• saezlab / decoupleR
  R package to infer biological activities from omics data using a collection of methods.
  ☆260Updated 4 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated this week
• bioFAM / MOFA
  Multi-Omics Factor Analysis
  ☆247Updated 4 years ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆281Updated last year
• pachterlab / sleuth
  Differential analysis of RNA-Seq
  ☆305Updated last month
• stuart-lab / signac
  R toolkit for the analysis of single-cell chromatin data
  ☆377Updated 5 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆299Updated 4 years ago
• SGDDNB / ShinyCell
  Shiny Interactive Web Apps for Single-Cell Data
  ☆191Updated 2 months ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆194Updated 2 months ago
• BioinformaticsFMRP / TCGAbiolinks
  TCGAbiolinks
  ☆325Updated 3 weeks ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆270Updated 3 weeks ago
• cole-trapnell-lab / monocle3
  ☆391Updated last week