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franciscozorrilla / metaGEM

:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
https://franciscozorrilla.github.io/metaGEM/
MIT License
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feat: replace bwa-mem with bwa-mem-2 #72

Closed franciscozorrilla closed 2 years ago

franciscozorrilla commented 3 years ago

bwa-mem-2 is apparently a faster and more efficient drop in replacement for bwa-mem. We should replace the older version for the newer one, this would make the crossMapSeries and abundance more memory/time efficient.

franciscozorrilla commented 3 years ago

Note that bwa-mem-2 is still not production ready, check back in a few months/years or search for alternative faster mapper