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
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