Improper labelling of conflicting variants as pathogenic about clinvar HOT 3 CLOSED

I have a quick solution on the script join_data.R. This will change the way we encode fields: pathogenic and benign.
pathogenic=1: If the variants are reported as Pathogenic/Likely pathogenic without "uncertain significance" submission
benign=1:If the variants are reported as Benign/Likely Benign without "uncertain significance" submission

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@XiaoleiZ Thanks for the solution. So far, I'm using the pre-formatted data available for download from this repo (and your fork) and making my changes locally in that data, instead of actually running the complete pipeline myself.

Is there any other major bug or recent problems that are not documented in Issues but would be good to be aware of?

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@XiaoleiZ - Looks like you meant to update Readme in your fork, but updated master repo here instead.

from clinvar.