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Pathogen-Genomics-Cymru / lodestone

Mycobacterial pipeline
GNU Affero General Public License v3.0
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Samples not passing to gnomonicus #26

Closed annacprice closed 1 year ago

annacprice commented 1 year ago

Due to differences in Mycobacterium tuberculosis species reporting in the Afanc report compared to the Mykrobe report, TB samples are failing to pass to gnomonicus

E.g. Mykrobe top hit: Mycobacterium tuberculosis Afanc top hit: Mycobacterium tuberculosis H37Rv

If-statement in clockwork:minos needs to be updated to reflect Afanc reporting, i.e. "starts with" Mycobcaterium tuberculosis

annacprice commented 1 year ago

fixed on cardiff-testing

annacprice commented 1 year ago

fixed on main