apt_snp6_batch: Run apt.snp6.process() with multithreading

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

Description

Same as apt.snp6.process() in batch mode, with multithreading.

Usage

  apt.snp6.process.batch(CEL.list.file = NULL, nthread = 1,
  cluster.type = "PSOCK", ...)

Arguments

CEL.list.file	A tab-separated file giving the names of the CEL files and corresponding sample name (see Details section).
nthread	Number of threads for multithreading (see Details).
cluster.type	Type of multithreading cluster (see ?parallel::makeCluster()).
...	Any parameter for the function apt.snp6.process(), except CEL and samplename.

Details

CEL.list.file is a tab-separated text file containing 2 columns :

• cel_files : Name (and path) of the CEL file(s)

• SampleName : The output sample name

Author(s)

Bastien Job

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