Differential Analysis of Intercellular Communication from scRNA-Seq Data

Analysis tools to investigate changes in intercellular communication from scRNA-seq data. Using a Seurat object as input, the package infers which cell-cell interactions are present in the dataset and how these interactions change between two conditions of interest (e.g. young vs old). It relies on an internal database of ligand-receptor interactions (available for both human and mouse) that have been gathered from several published studies. Detection and differential analyses rely on permutation tests. The package also contains several tools to perform over-representation analysis and visualize the results. See Lagger, C. et al. (2021) for a full description of the methodology.


Reference manual

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0.1.0 by Cyril Lagger, 5 months ago


Browse source code at https://github.com/cran/scDiffCom

Authors: Cyril Lagger [aut, cre] , Eugen Ursu [aut] , Anais Equey [ctb]

Documentation:   PDF Manual  

MIT + file LICENSE license

Imports data.table, DelayedArray, future, future.apply, magrittr, methods, Seurat, stats, utils

Suggests biomaRt, covr, ggplot2, igraph, kableExtra, KEGGREST, knitr, ontologyIndex, ontoProc, pkgdown, RColorBrewer, rmarkdown, spelling, SingleCellSignalR, testthat, visNetwork

See at CRAN