colourAdjustment: Step 6: Colour balancing for 2-colour microarrays Applies a...

In NeilPearson-Lilly/MethyLiution: MethyLiution: A QC Pipeline For Methylation Data

Description

This probably isn't something you want to run directly. Just use the runPipeline() function.

Usage

colourAdjustment(begin, mset_file, logfile, outdir, col.name = NULL,
  mset.lumi = NULL, sub_assays = NULL)

Arguments

begin	Step the pipeline begins at
mset_file	Path to file in which dataset object is stored between steps (auto-filled by runPipeline() function)
logfile	Path to log file (auto-filled by runPipeline() function)
outdir	Path to output directory
col.name	List of column names, generated by setColumnNames() (auto-filled by runPipeline() function)
mset.lumi	Microarray dataset object (auto-filled by runPipeline() function)
sub_assays	Object containing breakdown of sub-assays, made during Step 5.

Value

list - mset.lumi dataset, colour-balanced dataset object

NeilPearson-Lilly/MethyLiution documentation built on May 21, 2019, 11:29 a.m.