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Published 20 hours ago • verified publisher icon zhengxwen

HLA prediction quality

Open rcanovas opened this issue 5 years ago • 1 comments

Is there any way to obtain the quality (r2 or INFO) of imputing HLA-* ? So far, after doing the prediction I can only see the alleles and only one probability.

rcanovas avatar Jul 06 '20 07:07 rcanovas

Use that probability for a pair of alleles, and a threshold 0.5. Or output all prob. of the full pairs of alleles,

hlaPredict(object, snp, type="prob")

zhengxwen avatar Jul 08 '20 03:07 zhengxwen