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Add tag with pre-alignment score to unaligned reads #58
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How about the XS or xs tag, with the latter as per the README:
then one could get the xs tag for all reads |
perfect |
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I set
--pre-align-min-score 200
and had a read fail to align, however the read aligned with minimap2. When I dropped the threshold to100
, the read aligned.It would be useful to know the pre-alignment scores of reads that are expected to align but fail to do so, so that
--pre-align-min-score
can be adjusted intelligently.I don't see any reason why
AS
couldn't be used.The text was updated successfully, but these errors were encountered: