Capturing gene-cell duality in a cat's cradle

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Anna Laddach Franze Progatzky Vassilis Pachnis Michael Shapiro
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Abstract

SUMMARY: CatsCradle is an R package for single-cell analysis that exploits the duality between cells and the genes they express. Our package provides tools to cluster genes, visualise relationships between them, and to explore relationships between gene clusters (programmes) and cell clusters (cell types). AVAILABILITY AND IMPLEMENTATION: CatsCradle is available freely as an R Bioconductor package (https://bioconductor.org/packages/CatsCradle) and interfaces directly with Seurat and SingleCellExperiment data structures. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Journal details

Journal Bioinformatics
Volume 42
Issue number 1
Pages btaf681
Available online
Publication date

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Publisher website (DOI) 10.1093/bioinformatics/btaf681
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Europe PubMed Central 41520315
Pubmed 41520315

Data and code

doi.org/10.18129/B9.bioc.CatsCradle
www.bioconductor.org/packages/release/bioc/html/CatsCradle.html

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