rnaSeqMap (version 2.30.0)

getBamData: getBamData - getting sample data from BAM file.

Description

Add data from experimental samples stored in BAM file.

Usage

getBamData(rs, exps = NULL, cvd = NULL, covdesc.file = "covdesc")

Arguments

rs

SeqReads object to modify

exps

Vector of numbers of experimental samples

cvd

Covdesc-like data frame - BAM files are read from row names

covdesc.file

Alternatively, the experiment description file

Value

SeqReads object with samples added from the BAM files. List of BAM files comes from the covdesc. The covdesc content becomes phenoData of the object.

Examples

#  if (xmapConnected())  
#  {
#    rs <- newSeqReads(1,1,20000,1)
#    rs <- getBamData(rs,1:3)
#  }