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Validation Alleles set as "." or "-" #336

Open Ryan-Singh opened 8 years ago

Ryan-Singh commented 8 years ago

Looking at the oncotator files issued from firebrowse, the validation alleles can be listed as . or - when there are no samples for it to validate with. Huge problem, as one cannot tell if the allele is a "-" (gap) or if it simply does not have data available. See LUAD vs KIRC.

LeeTL1220 commented 8 years ago

this sounds like a question for GDAC or the firebrowse team. Oncotator is simply rendering what was provided by the analyst. On Nov 16, 2015 12:19 PM, "Ryan-Singh" notifications@github.com wrote:

Looking at the oncotator files issued from firebrowse, the validation alleles can be listed as . or - when there are no samples for it to validate with. Huge problem, as one cannot tell if the allele is a "-" (gap) or if it simply does not have data available. See LUAD vs KIRC.

— Reply to this email directly or view it on GitHub https://github.com/broadinstitute/oncotator/issues/336.