getArrayABsignal {compartmap}R Documentation

Estimate A/B compartments from methylation array data

Description

getArrayABsignal returns estimated A/B compartments from methylation array data.

Usage

getArrayABsignal(obj, res = 1e+06, parallel = FALSE, allchrs = FALSE,
  chr = NULL, targets = NULL, ...)

Arguments

obj

Input GenomicRatioSet object

res

Compartment resolution (in bp)

parallel

Should the inference be done in parallel?

allchrs

Whether all autosomes should be used for A/B inference

chr

Specific chromosomes to analyze

targets

Specify samples to use as shrinkage targets

...

Additional arguments

Details

This function is modified from the minfi::compartments to infer A/B compartments from array data

Value

A p x n matrix (samples as columns and compartments as rows) of compartments


[Package compartmap version 1.8.0 Index]