For every GRanges, GAlignments read, with the same: seqname, start, (cigar) / width and strand, collapse and give a new meta column called "score", which contains the number of duplicates of that read. If score column already exists, will return input object!
a GRanges, GAlignments or GAlignmentPairs object
alternative arguments. addScoreColumn = TRUE, if FALSE, only collapse and not add score column.
a GRanges, GAlignments or GAlignmentPairs object, same as input
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