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Published 20 hours ago • verified publisher icon gymreklab

compareSTR length genotype assumption

Open hopedisastro opened this issue 2 years ago • 0 comments

Hi, I'm trying to compare STR calls from GangSTR and ExpansionHunter using compareSTR. compareSTR was able to run and provide output files but I received the warning below. Why does this warning occur and how can I explicitly request length based genotypes?

tr_harmonizer.py:928: UserWarning: String genotypes have been requested for a TRRecord generated by a caller which only generates length genotypes, not string genotypes. Returning a fabricated string genotype. Consider requesting length based genotypes instead. warnings.warn("String genotypes have been requested for a"

hopedisastro avatar Mar 07 '22 22:03 hopedisastro