Description Usage Arguments Details Value
View source: R/seqarray_process_coverage.R
Return allele counts from a genofile based on read counts
1 | alleleCounts(gdsfile)
|
gdsfile |
a |
If ref.allele = NULL
, the function returns a list
of matrices corresponding to the read counts of the reference and alternate
alleles respectively, while if ref.allele = 0L
or ref.allele = 1L
the function returns a matrix corresponding the reference or alternate
read counts. Currently, the AD tag formats from varscan2re and GATK
are supported.
an alleleCounts matrix object, which is a list containg the
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