How the counts of a small RNA are calculated

Hi Tzahi, The counts at a given locus , and for the 'major RNA', are the number of aligned reads at that specific locus. For multimapped sequences, like many mature miRNAs, the counts are just those that were aligned at that specific genomic location. They will not usually be equally distributed across all possible alignment positions because of the way the script decides on best placements for multimappers (see Johnson et al for details).

On Tue, Oct 2, 2018 at 3:47 AM arazit notifications@github.com wrote:

Hi Mike, We noticed that miRNA clusters that contain identical mature miRNA sequence have different counts for that mature miRNA. Can you explain how the counts are calculated? Sincerely, Tzahi Arazi

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How the counts of a small RNA are calculated #83