diskin-lab-chop / AutoGVP

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Bug:InterVar when there is both pathogenic and benign code #115

Closed jungkim2 closed 1 year ago

jungkim2 commented 1 year ago

Provide the command used or report the bug here

In cases of variants getting InterVar as a call, when there is both pathogenic calls (PVS1, PS, PM, PP) and benign calls (BA1, BS, BP) it should be getting VUS call under Richards et al. table 5 with clause "the criteria for benign and pathogenic are contradictory”

some example variants

19-48703728-G-A 6-46716485-C-T

What version are you using?

Add error message here (if applicable)

Add Session info

Run sessionInfo() and post the output below

naqvia commented 1 year ago

Fixed and merged.