Alternatives and similar repositories for tabula-muris

Users that are interested in tabula-muris are comparing it to the libraries listed below

• dviraran / xCell
  Cell types enrichment analysis
  ☆197Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆126Updated last year
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• navinlabcode / copykat
  ☆235Updated 11 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆205Updated 8 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated last week
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆140Updated 3 years 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
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆283Updated 2 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆186Updated 2 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆174Updated 10 months ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆183Updated 4 years ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆318Updated 2 years ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆148Updated last year
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆201Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆182Updated 6 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆93Updated 2 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆128Updated 7 months ago
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆128Updated this week
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆185Updated last year
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆211Updated 2 weeks ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆154Updated 5 months ago
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆201Updated 2 years ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆158Updated 2 years ago
• velocyto-team / velocyto.py
  RNA velocity estimation in Python
  ☆170Updated last month
• neurorestore / Libra
  ☆171Updated 3 weeks ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated 3 weeks ago