readData: Step 1: Read dataset files

Description Usage Arguments Value

Description

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

Usage

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readData(datadir, metafile, logfile, mset_file, array = "450K",
  threads = 1, FDB)

Arguments

datadir

Path to directory containing IDAT files

metafile

Path to file containing experimental metadata

logfile

Path to log file (auto-filled by runPipeline() function)

mset_file

Path to file in which dataset object is stored between steps (auto-filled by runPipeline() function)

array

Microarray probeset used: valid options are "450K" and "EPIC" (default "450K")

threads

Number of threads to run certain tasks in parallel

FDB

Methylation annotation set (auto-filled by runPipeline() function)

Value

List - column names and methylumi dataset


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