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phac-nml / staramr

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Apache License 2.0
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Change to Phenotype Request #215

Open sgsutcliffe opened 4 months ago

sgsutcliffe commented 4 months ago

Request: Update and/or change the predicted phenotype output for some genes/mutations listed on the ResFinder/Pointfinder tables.

Problem: Observed that some genes/mutations yield "Sensitive" when no resistance is observed while others yeild "none" as the predicted phenotype.

Example: gene mcr-9 (ResFinder database) and the parC(57) mutation in PointFinder database both give a "none" in predicted phenotype. Possible solution: Change to "Sensitive".

Proposed Solution: More consistent reporting