preprocessArrays: Preprocess arrays for compartment inference

View source: R/getArrayABsignal.R

preprocessArraysR Documentation

Preprocess arrays for compartment inference

Description

Preprocess arrays for compartment inference

Usage

preprocessArrays(
  obj,
  genome = c("hg19", "hg38", "mm9", "mm10"),
  other = NULL,
  array.type = c("hm450", "EPIC")
)

Arguments

obj

Input SummarizedExperiment

genome

What genome are we working on ("hg19", "hg38", "mm9", "mm10")

other

Another arbitrary genome to compute compartments on

array.type

What type of array is this ("hm450", "EPIC")

Value

A preprocessed SummarizedExperiment to compute compartments

Examples

if (require(minfiData)) {
  grSet <- mapToGenome(ratioConvert(preprocessNoob(RGsetEx.sub)))
  preprocessArrays(grSet)
} 


biobenkj/compartmentalizer documentation built on Oct. 13, 2023, 5:26 p.m.