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Genepop output from hexploid vcf data #36

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ARW-UBT opened this issue Feb 18, 2021 · 0 comments
Open

Genepop output from hexploid vcf data #36

ARW-UBT opened this issue Feb 18, 2021 · 0 comments

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@ARW-UBT
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ARW-UBT commented Feb 18, 2021

Hi,
we have analyzed RAD-Seq data from hexaploid plants with dDocent. The Freebayes step was modified with '-p 6' to create a vcf file with hexaploid data.
In order to generate data for later use in STRUCTURE, we used rad_haplotyper to output genepop files. However, the genepop file contains only diplod data in the 3-digit form (see short example below).
Is it possible to generate true hexaploid genotype data for Genepop or Structure?

Best regards

POP
Pop1_LPV000007, 001002 001001 001001 001002 001001

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