Alternatives and similar repositories for fgsea:

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

• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆258Updated 3 months ago
• YuLab-SMU / enrichplot
  Visualization of Functional Enrichment Result
  ☆237Updated last week
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆454Updated 2 months ago
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆233Updated last week
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆366Updated 2 months ago
• ncborcherding / scRepertoire
  A toolkit for single-cell immune profiling
  ☆320Updated last week
• hbctraining / DGE_workshop_salmon_online
  ☆186Updated 2 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆399Updated this week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆182Updated last week
• rcastelo / GSVA
  Gene set variation analysis
  ☆208Updated this week
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆419Updated 7 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆372Updated this week
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆312Updated this week
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆304Updated last year
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆118Updated 4 years ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆317Updated last month
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆506Updated 4 months ago
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆350Updated last month
• dtm2451 / dittoSeq
  Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
  ☆193Updated 3 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆474Updated 2 months ago
• saezlab / decoupleR
  R package to infer biological activities from omics data using a collection of methods.
  ☆218Updated 2 months ago
• immunomind / immunarch
  🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
  ☆313Updated 9 months ago
• mixOmicsTeam / mixOmics
  Development repository for the Bioconductor package 'mixOmics '
  ☆171Updated this week
• pachterlab / sleuth
  Differential analysis of RNA-Seq
  ☆304Updated 6 months ago
• bioFAM / MOFA
  Multi-Omics Factor Analysis
  ☆236Updated 4 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆181Updated this week
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated last year
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆280Updated 3 years ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆242Updated last year
• stephenturner / annotables
  R data package for annotating/converting Gene IDs
  ☆163Updated last year