COCOA: Coordinate Covariation Analysis (COCOA)
In databio/PCRSA: Coordinate Covariation Analysis
COCOA R Documentation
Coordinate Covariation Analysis (COCOA)
Description
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.
Author(s)
John Lawson
Nathan Sheffield
References
databio/PCRSA documentation built on Sept. 2, 2023, 11:24 p.m.
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| COCOA | R Documentation |
Coordinate Covariation Analysis (COCOA)
Description
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.
Author(s)
John Lawson
Nathan Sheffield
References
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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