[Vcftools-help] vcf-to-tab handling of unphased genotypes

[Heidi P. <hei...@gm...>]

Hi, I had a question about how unphased genotypes are treated by vcf-to-tab.

If my input vcf file has the following:

REF    ALT     GT
G        A        0/1
A        C        1|0
C        A        1|0
T         A        1|0
C        A         0|1

I find that the output does not reflect that the first variant genotype is
unphased:

G/A
C/A
A/C
A/T
C/A

Is there any option for it to output some indication that the genotype is
not phased at that position?

Thank you,

~ Heidi