recipe bioconductor-cocoa

Coordinate Covariation Analysis






COCOA is a method for understanding epigenetic variation among samples. COCOA can be used with epigenetic data that includes genomic coordinates and an epigenetic signal, such as DNA methylation and chromatin accessibility data. To describe the method on a high level, COCOA quantifies inter-sample variation with either a supervised or unsupervised technique then uses a database of "region sets" to annotate the variation among samples. A region set is a set of genomic regions that share a biological annotation, for instance transcription factor (TF) binding regions, histone modification regions, or open chromatin regions. COCOA can identify region sets that are associated with epigenetic variation between samples and increase understanding of variation in your data.

package bioconductor-cocoa

(downloads) docker_bioconductor-cocoa



Required By:


With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-cocoa

and update with:

conda update bioconductor-cocoa

or use the docker container:

docker pull<tag>

(see bioconductor-cocoa/tags for valid values for <tag>)

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