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0.16.3 - Additional bug fix for ambiguous Bowtie 2 alignments
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@FelixKrueger FelixKrueger released this 25 Jul 15:16
· 665 commits to master since this release
0.16.3
966f3e3

Bismark

  • Essential: Fixed another bug where a subset of ambiguous Bowtie 2 alignments where considered unique even though
    they had been ambiguous in a different thread before, e.g.:
Read 1: AS:i:0 XS:i:0
Read 2: AS:i:0

In such cases the 'ambiguous within thread' variable is now only reset if the second alignment is truly better. This also affects the ambig.bam output.

  • Added support for large Bowtie (1) index files ending in .ebwtl which had been added in Bowtie v1.1.0.
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