Alternatives and similar repositories for cellphonedb:

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

• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆515Updated 2 weeks ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆445Updated last month
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆367Updated 2 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆409Updated last year
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆286Updated 4 years ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆313Updated last year
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆278Updated 2 years ago
• cole-trapnell-lab / monocle3
  ☆371Updated 2 months ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆364Updated 3 months ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆323Updated 3 months ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆404Updated 3 weeks ago
• IanevskiAleksandr / sc-type
  ☆255Updated 4 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆310Updated 7 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆327Updated last month
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆456Updated 9 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆265Updated 2 years ago
• navinlabcode / copykat
  ☆226Updated 8 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆406Updated last month
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆430Updated 2 weeks ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆340Updated 2 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆382Updated this week
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆337Updated 2 months ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆315Updated this week
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆268Updated last week
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆361Updated 3 months ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆599Updated last month
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆204Updated last week
• STOmics / Stereopy
  A toolkit of spatial transcriptomic analysis.
  ☆223Updated this week
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆342Updated 9 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆267Updated 5 months ago