Alternatives and similar repositories for CellChat:

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

• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆487Updated 11 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆420Updated last year
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆464Updated last month
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆535Updated last week
• IanevskiAleksandr / sc-type
  ☆261Updated 5 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆419Updated 2 months ago
• cole-trapnell-lab / monocle3
  ☆380Updated 4 months ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆330Updated 5 months ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆360Updated 2 weeks ago
• Teichlab / cellphonedb
  ☆354Updated 3 years ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆609Updated 3 months ago
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆386Updated 4 months ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆445Updated last year
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆363Updated 11 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆404Updated last month
• STOmics / Stereopy
  A toolkit of spatial transcriptomic analysis.
  ☆238Updated 2 weeks ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆332Updated this week
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆294Updated 4 years ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆326Updated 9 months ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆135Updated 2 years ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆412Updated this week
• sqjin / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
  ☆694Updated last year
• quadbio / scRNAseq_analysis_vignette
  Tutorial for scRNA-seq data analysis beginners using R
  ☆195Updated 2 months ago
• hbctraining / Intro-to-scRNAseq
  ☆583Updated 3 weeks ago
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆404Updated 5 months ago
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆331Updated 2 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆485Updated this week
• junjunlab / scRNAtoolVis
  Useful functions to make your scRNA-seq plot more cool!
  ☆335Updated 3 months ago
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆500Updated last year
• genecell / single-cell-papers-with-code
  Papers with code for single cell related papers
  ☆281Updated last year