Dear people I was wondering if sciclone could handel multialllic variants.
sofar I am filtering them out because it needs more than three column.
on idea would be write them under another, like : chrom1 pos1 A G chrom1 pos1 A C chrom1 pos2 ref var
But preferably I would like to calculate MAF based on var count of all kinds of variant calls. Just in case if sciclone could not handel the multiallelic variants.