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README

scDiffCom

scDiffCom stands for “single-cell Differential Communication” and infers changes in intercellular communication between two biological conditions from scRNA-seq data (as Seurat objects). The package relies on an internal collection of ligand-receptor interactions (available for human, mouse and rat) retrieved from seven curated databases.

Display LRI databases

CellChat
CellPhoneDB
CellTalkDB
connectomeDB2020
ICELLNET
NicheNet
SingleCellSignalR

Installation

# Install the development version from GitHub
devtools::install_github("CyrilLagger/scDiffCom")

# Install release version from CRAN
install.packages("scDiffCom")

Usage

As an introduction, please look at the documentation and this vignette.

For a concrete and large-scale project that used scDiffCom, please look at scagecom.org, our murine atlas of age-related changes in intercellular communication.

Citation

Please consider reading and citing our Nature Aging paper: here.