Alternatives and similar repositories for MAST

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

• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆192Updated 3 weeks ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆228Updated 3 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆289Updated 2 years ago
• kstreet13 / slingshot
  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
  ☆300Updated last year
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆234Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆230Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆187Updated 9 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆166Updated last year
• xuranw / MuSiC
  Multi-subject Single Cell Deconvolution
  ☆266Updated last year
• navinlabcode / copykat
  ☆247Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated 2 weeks ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆285Updated this week
• Oshlack / splatter
  Simple simulation of single-cell RNA sequencing data
  ☆228Updated last month
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆196Updated 3 months ago
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆213Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆189Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆187Updated 8 months ago
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆167Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆212Updated last year
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆300Updated 5 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆179Updated last year
• dynverse / dynbenchmark
  Comparison of methods for trajectory inference on single-cell data 🥇
  ☆213Updated last year
• neurorestore / Libra
  ☆173Updated 3 months ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated 2 years ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆220Updated this week
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆162Updated last year
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆204Updated 3 weeks ago