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Posts by jc_jones
convert vcf file (based using beagle) to ldhat input files when I have 6000 "chromosomes" (scaffolds)
... I am hoping to use vcftools to convert my phased vcf file (from beagle, where the genotypes are coded as reference and alternate - 0 and 1) into the format required for LDhat. This is possible using the —ldhat flags, however I want to include all of my “chromosomes” (scaffolds) of which there are a ...
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