Alternatives and similar repositories for MAST:

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

• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆273Updated 2 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆187Updated 2 months ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆221Updated this week
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• navinlabcode / copykat
  ☆231Updated 10 months ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated last year
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆190Updated 2 weeks ago
• statOmics / tradeSeq
  TRAjectory-based Differential Expression analysis for SEQuencing data
  ☆255Updated 3 months ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated 2 weeks ago
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆185Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆173Updated 9 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆195Updated 11 months ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆271Updated 3 weeks ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆201Updated 8 months ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆180Updated 5 months ago
• rcastelo / GSVA
  Gene set variation analysis
  ☆216Updated last week
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆163Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆179Updated 5 months ago
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆229Updated last year
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆191Updated last month
• neurorestore / Libra
  ☆166Updated 8 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• sunduanchen / Scissor
  Scissor package
  ☆216Updated 11 months ago
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆290Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆144Updated 3 months ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆204Updated last week
• Oshlack / splatter
  Simple simulation of single-cell RNA sequencing data
  ☆226Updated 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.
  ☆252Updated last week
• dtm2451 / dittoSeq
  Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
  ☆198Updated 7 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆324Updated 9 months ago