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 last month
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆407Updated last week
• hbctraining / Training-modules
  Materials for short, half-day workshops
  ☆336Updated last month
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆292Updated last month
• hbctraining / Intro-to-DGE
  ☆205Updated last week
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆238Updated 4 months ago
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆472Updated last month
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆345Updated last week
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆499Updated 3 weeks ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆329Updated this week
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆438Updated last year
• immunomind / immunarch
  🧬 immunarch [R package] – Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
  ☆323Updated last year
• SGDDNB / ShinyCell
  Shiny Interactive Web Apps for Single-Cell Data
  ☆193Updated 4 months ago
• bioFAM / MOFA2
  Multi-Omics Factor Analysis
  ☆346Updated last year
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆342Updated 9 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆418Updated last month
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆186Updated 4 years ago
• rcastelo / GSVA
  Gene set variation analysis
  ☆223Updated 4 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆192Updated last month
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆231Updated 3 months ago
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆122Updated 5 years ago
• gladstone-institutes / Bioinformatics-Workshops
  Workshops presented by the Gladstone Bioinformatics Core
  ☆236Updated last week
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆282Updated last year
• cole-trapnell-lab / monocle-release
  ☆289Updated 3 years ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆279Updated 2 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆301Updated 5 years ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆430Updated last month
• pachterlab / sleuth
  Differential analysis of RNA-Seq
  ☆305Updated 2 months ago
• saezlab / decoupleR
  R package to infer biological activities from omics data using a collection of methods.
  ☆261Updated 5 months ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated last month