Alternatives and similar repositories for decoupleR

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

• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆197Updated 3 months ago
• rcastelo / GSVA
  Gene set variation analysis
  ☆223Updated 4 months ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆186Updated last week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆193Updated last month
• dtm2451 / dittoSeq
  Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
  ☆204Updated 11 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆205Updated 2 weeks ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆279Updated 2 months ago
• SGDDNB / ShinyCell
  Shiny Interactive Web Apps for Single-Cell Data
  ☆193Updated 4 months ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆187Updated 9 months ago
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆304Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆289Updated 2 weeks ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated last month
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆213Updated last year
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆391Updated 2 months ago
• saezlab / OmnipathR
  R client for the OmniPath web service
  ☆139Updated this week
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆223Updated 2 weeks ago
• samuel-marsh / scCustomize
  R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆269Updated this week
• satijalab / seurat-data
  Dataset distribution for Seurat
  ☆143Updated 5 months ago
• OSCA-source / OSCA
  The package wrapping the book, for deployment via the Bioconductor build system.
  ☆88Updated 9 months 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…
  ☆176Updated 2 weeks ago
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆234Updated last week
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆132Updated 9 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆205Updated 2 weeks ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆184Updated 2 months ago
• zktuong / ktplots
  Some tools for plotting single-cell data
  ☆174Updated 3 months ago
• dynverse / dyno
  Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕
  ☆182Updated 4 years ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆345Updated 2 weeks ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆430Updated last month
• huayc09 / SeuratExtend
  ☆163Updated last week
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆231Updated 3 months ago