For variants included in preliminary estimates, we should be removing any HC pLoF variant that has a clinvar classification of Benign or Likely Benign. I thought we had already done that but this example linked below has a bunch of them so I am not sure what is going on
Also found a couple of examples where it was pulling in variants from ClinVar based on "association" as the classification. This should also be removed from being included
sambaxter
commented
1 month ago
For variants included in preliminary estimates, we should be removing any HC pLoF variant that has a clinvar classification of Benign or Likely Benign. I thought we had already done that but this example linked below has a bunch of them so I am not sure what is going on
Example (https://genie.broadinstitute.org/dashboard/ENSG00000174177)