R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
☆587Mar 4, 2026Updated last month
Alternatives and similar repositories for CellChat
Users that are interested in CellChat are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆470Jun 6, 2025Updated 10 months ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆778Jan 6, 2024Updated 2 years ago
- An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.☆641Mar 11, 2026Updated last month
- Quantifying metabolism activity at the single-cell resolution☆173Feb 18, 2026Updated 2 months ago
- NicheNet: predict active ligand-target links between interacting cells☆639Nov 12, 2025Updated 5 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Methods for detecting doublets in single-cell sequencing data☆246Feb 12, 2026Updated 2 months ago
- R package for detecting doublets in single-cell RNA sequencing data☆545Mar 21, 2025Updated last year
- LIANA: a LIgand-receptor ANalysis frAmework☆239Aug 7, 2024Updated last year
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆242Mar 17, 2026Updated last month
- High dimensional weighted gene co-expression network analysis☆472Mar 13, 2026Updated last month
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆185Aug 12, 2025Updated 8 months ago
- Inferring CNV from Single-Cell RNA-Seq☆663Nov 14, 2025Updated 5 months ago
- ☆447Apr 23, 2026Updated last week
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆482Apr 5, 2024Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Scissor package☆261May 10, 2024Updated last year
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 2 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆600Jun 26, 2025Updated 10 months ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆297Apr 9, 2026Updated 3 weeks ago
- BANKSY: spatial clustering☆141Oct 15, 2025Updated 6 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆642Apr 21, 2026Updated last week
- A tool for semi-automatic cell type classification☆473Mar 21, 2026Updated last month
- Gene set scoring for single-cell data☆192Feb 11, 2026Updated 2 months ago
- reticulate-free single cell format conversion☆216Mar 16, 2026Updated last month
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Gene group activity utility functions for Scanpy☆101Dec 21, 2024Updated last year
- A Toolbox for Spatial Transcriptomics Analysis☆166May 6, 2025Updated 11 months ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆323Nov 1, 2022Updated 3 years ago
- R toolkit for single cell genomics☆2,715Apr 22, 2026Updated last week
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆86Mar 19, 2026Updated last month
- A toolkit for single-cell immune profiling☆367Updated this week
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆449Jan 22, 2026Updated 3 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆392Jul 30, 2025Updated 9 months ago
- ☆129Mar 27, 2022Updated 4 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆122Apr 26, 2025Updated last year
- ☆99Apr 16, 2026Updated 2 weeks ago
- ☆224May 6, 2024Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆428Apr 23, 2026Updated last week
- Easy single cell analysis platform for enrichment☆219Apr 3, 2026Updated 3 weeks ago
- Community-provided extensions to Seurat☆361Feb 17, 2026Updated 2 months ago
- Conversion between scRNA-seq objects☆206Apr 16, 2026Updated 2 weeks ago