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chromswitch: An R/Bioconductor package for detecting chromatin state switches

chromswitch implements a flexible method to detect chromatin state switches between samples in two biological conditions in a specific genomic region of interest given peaks or chromatin state calls from ChIP-seq data.


The chromswitch paper is now published Bioinformatics:

Selin Jessa, Claudia L Kleinman (2018). chromswitch: a flexible method to detect chromatin state switches, Bioinformatics,

For details on the method, see the Supplementary Methods.


chromswitch is available from Bioconductor at To install the package from the R console:


For an introduction to the package, check out the vignette, or open it from the R console:



Bug reports and issues are welcome, please open an issue in the GitHub repository.

sjessa/chromswitch documentation built on Oct. 20, 2021, 2:12 p.m.