writeCNProfile: Outputs the processed profile of a 'SeqCNAInfo-class' object...

In seqCNA: Copy number analysis of high-throughput sequencing cancer data

Description

The output columns depend on the processing applied on the SeqCNAInfo-class object.

Usage

writeCNProfile(rco, folder)

Arguments

rco	A SeqCNAInfo-class object.
folder	Path to the folder where the table with the output from the SeqCNAInfo-class object is to be generated.

Value

Nothing is returned from this function. Check the folder folder for a text file called seqCNA_out.txt.

Author(s)

David Mosen-Ansorena

Examples

data(seqsumm_HCC1143)
rco = readSeqsumm(tumour.data=seqsumm_HCC1143)
rco = applyFilters(rco, 0, 1, 0, 2, FALSE, plots=FALSE)
rco = runSeqnorm(rco, plots=FALSE)
rco = runGLAD(rco)
rco = applyThresholds(rco, seq(-0.9,4,by=0.9), 1)

writeCNProfile(rco, tempdir())

seqCNA documentation built on Nov. 8, 2020, 7:09 p.m.