apt_snp6_process: Normalize GenomeWideSNP.6 arrays using Affymetrix Power...

In gustaveroussy/apt.snp6.1.20.0: Affymetrix GenomeWideSNP_6 processing using apt-copynumber-workflow (1.20.0)

Description

This function performs the normalization of a CEL file for Affymetrix GenomeWide_SNP.6 microarrays using the binary apt-copynumber-workflow (v1.20.0 2015-08-28) from Affymetrix Power Tools.

Usage

  apt.snp6.process(CEL = NULL, samplename = NULL, out.dir = getwd(),
  temp.files.keep = FALSE, force.OS = NULL, apt.build = "na35.r1")

Arguments

CEL	A CEL file.
samplename	Name of the analyzed sample.
out.dir	The path to output results.
temp.files.keep	Keep the (numerous) intermediate files.
force.OS	Specifiy the OS type of the execution machine (see Details).
apt.build	Affymetrix genome build version.

Details

force.OS is NULL by default, but can take any of these values :

• linux

• windows

• osx

Author(s)

Bastien Job

gustaveroussy/apt.snp6.1.20.0 documentation built on May 25, 2019, 5:26 p.m.