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tfwillems / HipSTR

Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
GNU General Public License v2.0
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AMEL bed area not in the provided bed file #73

Closed zhangyafeng1 closed 4 years ago

zhangyafeng1 commented 4 years ago

hello: I am a newbie, the problem may seem simple Why are there no bed area for the AMEL genome on the X and Y chromosomes in the provided bed file?

Thank you very much!

tfwillems commented 4 years ago

Hi @zhangyafeng1 ,

Since this marker is present on both the X and Y chromosomes, aligners may have a hard time uniquely mapping to one vs. the other. You can certainly add an entry for it to the BED files if you’re interested in seeing how it performs

Best, Thomas