bwa mem: print qtip features #156
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Dear BWA team, any chance for a review? |
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This adds the code that prints the features used by
qtip(paper: https://doi.org/10.1186/s13059-017-1290-3) to predict mapping qualities. They are printed in an extra flag calledZT:Z. To date I'd only made the changes available as a patch in theqtiprepo (https://github.com/BenLangmead/qtip/blob/master/software/bwa/bwa_conc_flags_0.7.15.patch), but I wanted to also turn them into a more convenient pull request in case this is something others might use.