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fix: filter multimappers #147

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deliaBlue opened this issue Jan 12, 2025 · 0 comments · May be fixed by #148

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bug high priority

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deliaBlue commented Jan 12, 2025 •

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Currently, MIRFLOWZ is favoring mismatches over InDels in the multimappers filtering step, but it has been shown ( Saunders et al. (2007), Neilsen et al. (2012), Schumauch et al. (2024) ) that mismatches are less frequent.

In order to fix this:

Change the filter_multmappers.py script to keep those alignments with fewer mismatches
Update the unit tests and their files
Update the pipeline documentation

deliaBlue added bug high priority labels

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fix: filter multimappers by max InDels #148

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deliaBlue linked a pull request

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fix: filter multimappers by max InDels #148

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