importFromApt.CnChipEffectSet: Imports copy-number estimates from an APT summary file
Description
Imports copy-number estimates from an APT summary file.
Currently only total copy-number estimates can be imported.Usage
CnChipEffectSet$importFromApt(filename, path=NULL, combineAlleles=TRUE, cdf, ..., skip=TRUE, verbose=FALSE)
Arguments
filename
The filename of the APT summary file.
path
An optional path to the file.
skip
If TRUE, already imported arrays will be skipped. synopsis
importFromApt.CnChipEffectSet(static, filename, path=NULL, combineAlleles=TRUE, cdf, ..., skip=TRUE, verbose=FALSE)Details
This import method is robust and memory efficient. One array at the
time is imported by first writing to a temporary file which is then
renamed to the final name, if import was successful. (If the import
failed, a temporary file will rename that has to be deleted manually).
Since only one array at the time is imported, the memory overhead
will be bounded allowing to import very large tab-delimited data files
containing a large number of arrays. Unfortunately, this approach
slows down the reading substantially, because in each import all but
one column is parsed but ignored.