Export total and allele B signal data sets as a unified parent-specific copy number signal data set, where each sample is stored in one data file (contrary to the input data sets where each sample is stored in two separated files).
# S3 method for AromaUnitTotalCnBinarySet
exportAromaUnitPscnBinarySet(dsT, dsB="*", dataSet="*", tags="*", ...,
rootPath="totalAndFracBData/", overwrite=!skip, skip=TRUE, verbose=FALSE)
# S3 method for list
exportAromaUnitPscnBinarySet(dsList, ...)Returns an AromaUnitPscnBinarySet object.
An AromaUnitTotalCnBinarySet and an AromaUnitFracBCnBinarySet with coupled sets of samples that match up by name. If they don't match up, an exception is thrown. The allele B fraction (BAF) data set dsB is by default inferred from the total CN data set dsT.
The name and tags of the output data set.
The default is to infer those from the input dsT data set.
Not used.
The root path of the output data set.
Specifies whether to overwrite and/or skip already exported samples.
See Verbose.
A common use case is to run allele-specific CRMAv2, e.g.
dsNList <- doASCRMAv2(csR), which outputs a list dsNList
with elements corresponding to dsT and dsB. This output
can be exported to AromaUnitPscnBinarySet by this method as
dsN <- exportAromaUnitPscnBinarySet(dsNList).
Henrik Bengtsson