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
  ☆248Updated 3 weeks ago
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆477Updated 3 months ago
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆415Updated last month
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆505Updated last week
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆239Updated 5 months ago
• hbctraining / Training-modules
  Materials for short, half-day workshops
  ☆338Updated 2 weeks ago
• immunomind / immunarch
  🧬 immunarch [R package] – Multi-Modal Immune Repertoire Analytics for Immunotherapy and Vaccine Design
  ☆327Updated 3 weeks ago
• hbctraining / Intro-to-DGE
  ☆207Updated last month
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆297Updated 2 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆349Updated this week
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆348Updated 10 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆421Updated last month
• rcastelo / GSVA
  Gene set variation analysis
  ☆226Updated this week
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆331Updated last week
• BioinformaticsFMRP / TCGAbiolinks
  TCGAbiolinks
  ☆332Updated last month
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆439Updated last year
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆286Updated last year
• hbctraining / DGE_workshop
  ☆400Updated 3 years ago
• pachterlab / sleuth
  Differential analysis of RNA-Seq
  ☆306Updated 4 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆434Updated last month
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆303Updated 5 years ago
• bioFAM / MOFA2
  Multi-Omics Factor Analysis
  ☆351Updated last year
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆195Updated 2 months ago
• cole-trapnell-lab / monocle-release
  ☆289Updated 3 years ago
• SGDDNB / ShinyCell
  Shiny Interactive Web Apps for Single-Cell Data
  ☆194Updated 5 months ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆203Updated 2 weeks ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆238Updated 5 months ago
• saezlab / decoupleR
  R package to infer biological activities from omics data using a collection of methods.
  ☆268Updated 6 months ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆293Updated 2 years ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆431Updated 7 months ago