WES.Bin.Batch: Run WES.Bin() in batch mode with multithreading

In gustaveroussy/EaCoN: EaCoN : Easy Copy Number !

Description

This is just a wrapper to WES.Bin() with multithreading.

Usage

  WES.Bin.Batch(BAM.list.file = NULL, BINpack = NULL, nthread = 1,
  cluster.type = "PSOCK", ...)

Arguments

BAM.list.file	A tab-separated file giving the file names of the test and ref BAM files and corresponding sample name (see Details section).
BINpack	A data pack generated with BINpack.Maker() containing to a binned version of the capture BED used to generate the BAM files, and corresponding precomputed GC% tracks.
nthread	Number of threads for multithreading.
cluster.type	Type of multithreading cluster (see ?parallel::makeCluster()).
...	Any parameter for the function WES.Bin(), except testBAM, refBAM and samplename.

Details

BAM.list.file is a tab-separated text file containing 3 columns (header and specified column names are mandatory) :

• testBAM : Name (and path) of the test BAM file(s)

• refBAM : Name (and path) of the reference BAM file(s)

• SampleName : The output sample name(s)

Author(s)

Bastien Job

gustaveroussy/EaCoN documentation built on Oct. 20, 2021, 2:41 a.m.