GT value in VCF files of a haplotype species.
Hi, I'm now working on calling variants from Chlamydomonas, Cuz' Chlamydomonas is a haplotype species, so what's the meaning of GT in VCF files? Can I regard 0/0 as homozygote? Thanks!
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Andrew Liu •
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Thanks for you reply. But Chlamydomonas is a haplotype species, so I'm wondering what if I got 1/1, what's the meaning of the result? Does it mean the both of chains of DNA are changed?
do you mean haploid ?
so it's more a problem with your variant caller than with the vcf format itself.