Segment.ff.Batch: L2R and BAF joint segmentation, from a RDS file in batch...

In gustaveroussy/EaCoN: EaCoN : Easy Copy Number !

Description

This function is just a wrapper to Segment.ff() with multithreading).

Usage

  Segment.ff.Batch(RDS.files = list.files(path = getwd(),
  pattern = "_processed.RDS$",  full.names = TRUE, recursive = TRUE,
  ignore.case = TRUE, include.dirs = FALSE), segmenter = "ASCAT",
  nthread = 1, cluster.type = "PSOCK", ...)

Arguments

RDS.files	A list of RDS files generated with a normalization function : WES.Normalize() (for WES data), CS.Process() (for Affymetrix CytoScan data), OS.Process() (for Affymetrix OncoScan data), or SNP6.Process() (for Affymetrix GenomeWideSNP_6 data).
segmenter	The (case sensitive!) name of the segmenter ("ASCAT" or "FACETS")
nthread	Number of threads.
cluster.type	Type of multithreading cluster (see ?parallel::makeCluster()).
...	Any parameter to the segmentation function refered by the segmenter name, except data.

Author(s)

Bastien Job

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