Alternatives and similar repositories for scCATCH

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

• sunduanchen / Scissor
  Scissor package
  ☆238Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆221Updated last year
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆168Updated 2 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆166Updated 2 months ago
• neurorestore / Libra
  ☆177Updated 5 months ago
• navinlabcode / copykat
  ☆256Updated last week
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆215Updated last year
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆191Updated last month
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆148Updated 3 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆296Updated 2 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆218Updated last year
• huayc09 / SeuratExtend
  ☆179Updated last month
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆143Updated 3 months ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆295Updated 2 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆210Updated 2 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆211Updated 2 months ago
• IanevskiAleksandr / sc-type
  ☆275Updated 11 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
  ☆122Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆171Updated last year
• dviraran / xCell
  Cell types enrichment analysis
  ☆203Updated last year
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆174Updated 6 months 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.
  ☆276Updated last week
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆293Updated 2 years ago
• zktuong / ktplots
  Some tools for plotting single-cell data
  ☆176Updated 5 months ago
• Danko-Lab / BayesPrism
  A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression
  ☆209Updated 4 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆306Updated 5 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆196Updated last week
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆136Updated 3 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆133Updated last year