importFilterHypermutators: Filters out hypermutators

In hyginn/rete: Network Analysis for Cell- and Systems Biology

Description

importFilterHypermutators identifies the number of SNV and CNA mutations for each sample and removes the samples from rSNV and rCNA datasets. Default threshold for removal is 400 mutations per sample.

Usage

importFilterHypermutators(rSNVFileIn = c(), rCNAFileIn = c(),
  dOut = getwd(), xS = 400, silent = FALSE, writeLog = TRUE,
  writeDetailedLog = TRUE)

Arguments

rSNVFileIn	A vector of local file names of rSNV
rCNAFileIn	A vector of local file names of rCNA
dOut	Directory to store output, defaults to getwd().
xS	Mutation threshold. 400 by default.
silent	Controls whether output to console should be suppressed. FALSE by default.
writeLog	Controls whether writing the result to the global logfile is enabled. TRUE by default.
writeDetailedLog	Flag for extra details about log. TRUE by default.

Examples

## Not run: 
    importFilterHypermutators(rSNVFileIn, rCNAFileIn, dOut, xS)

## End(Not run)

hyginn/rete documentation built on May 17, 2019, 9:16 p.m.