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Any tools to convert vcf data to lfmm genotype? #2

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xiekunwhy opened this issue Jun 9, 2019 · 1 comment

xiekunwhy commented Jun 9, 2019

Hi,

How to convert vcf format to lfmm genotype format? How to deal with heterozygosity and missing data in vcf? I can only see 0 and 1 in example data.

Best wishes,
Kun

atongsa commented Nov 6, 2021

actually the tped file is very close to the lfmm genotype file , you can use both vcftools or plink to do this

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