Alternatives and similar repositories for OSCA:

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

• MangiolaLaboratory / sccomp
  Mixed-effect model to test differences in cell type proportions from single-cell data, in R
  ☆99Updated this week
• wjawaid / enrichR
  An R interface to enrichR
  ☆88Updated 2 weeks ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆181Updated last week
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆119Updated 4 years ago
• pwwang / scplotter
  scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy…
  ☆138Updated last week
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆121Updated 3 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆177Updated last week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆182Updated this week
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆91Updated 4 months ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆180Updated last week
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆160Updated 3 weeks ago
• Bioconductor / OrchestratingSingleCellAnalysis
  Content for the OSCA Book.
  ☆66Updated last year
• hbctraining / DGE_workshop_salmon
  ☆71Updated 3 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆89Updated last year
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆90Updated 2 months ago
• saezlab / decoupleR
  R package to infer biological activities from omics data using a collection of methods.
  ☆224Updated this week
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆179Updated last week
• huayc09 / SeuratExtend
  ☆121Updated last week
• tidyomics / tidyomics
  Easily install and load packages from the tidyomcis ecosystem
  ☆63Updated 11 months ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆118Updated last week
• rezakj / iCellR
  Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRN…
  ☆120Updated 7 months ago
• GSEA-MSigDB / GSEA_R
  Updated implementation of the GSEA-P R application for modern R distributions
  ☆95Updated 3 years ago
• saezlab / OmnipathR
  R client for the OmniPath web service
  ☆126Updated last week
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆162Updated 2 months ago
• jokergoo / simplifyEnrichment
  Simplify functional enrichment results
  ☆113Updated 5 months ago
• rpolicastro / scProportionTest
  ☆60Updated last year
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆101Updated 8 years ago
• rcastelo / GSVA
  Gene set variation analysis
  ☆210Updated this week
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆120Updated 9 months ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆64Updated 7 months ago