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Attribute
Single-Cell & Spatial Biology

CellChat

University of California, Irvine (Nie Lab)
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CategorySingle-Cell & Spatial Biology
CompanyUniversity of California, Irvine (Nie Lab)
PriceFree Open Source
StatusStatus not confirmed
AvailabilityAvailable on GitHub and CRAN
Last checked20/09/2026
FeaturesComprehensive database of signaling interactions accounting for multi-subunit complexes, Quantification of incoming and outgoing signaling communication probability per cell type, Pattern recognition uncovering major signaling coordination pathways, Support for spatial transcriptomics to restrict communication by physical distance
Entry typeR Software Package
Access modeOpen Source
AI roleNetwork Inference & Pattern Recognition
Input dataNot recorded
Output dataNot recorded
Licence conditionsGPL-3.0
Commercial eligibilityOpen source release
Compute requirementsStandard workstation CPU (R package)
ValidationNot recorded
TypeIntercellular signaling inference tool
Intended useNot recorded
CompatibilityNot recorded
ManufacturerUC Irvine
Biological applicationTumor microenvironment analysis, immune cell crosstalk, and developmental biology
Research workflowSingle-cell expression matrix -> signaling pathway probabilities and network graphs
Evidence levelPeer-reviewed research (Nature Communications 2021)
Integration evidencehttps://github.com/jinworks/CellChat
Laboratory handoffValidates predicted ligand-receptor pairs via antibody blockade or co-culture assays