maKaryogram: Karyogram of the differentially methylated regions (DMRs)...

Description Usage Arguments Value

View source: R/reporting.r

Description

Will plot a karyogram of the DMRs. A black line above shows regions of coverage by the sequencing experiment.

Usage

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maKaryogram(ma, reads, frequentonly = TRUE, patt = NULL, colors = NULL,
  file = NULL)

Arguments

ma

Output object from methylaction()

reads

Preprocessed reads/fragments data from getReads()

frequentonly

Only plot for DMRs where "frequent" is TRUE

patt

Character vector of patterns to restrict plot to

colors

Character vector of custom colors (as hex codes) for each pattern in patt

file

Where to save the image (PDF format), if NULL, will print to current graphics device

Value

Saves plot to disk or outputs to graphics device


jeffbhasin/methylaction documentation built on May 17, 2017, 3:59 p.m.