Make vcf_to_fasta.py work with VCFs containing haploid genotype calls.

MikkelSchubert / paleomix

Pipelines and tools for the processing of ancient and modern HTS data.

https://paleomix.readthedocs.io/en/stable/

MIT License

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Make vcf_to_fasta.py work with VCFs containing haploid genotype calls. #12

Closed grahamgower closed 7 years ago

grahamgower commented 7 years ago

Hi Mikkel,

Some folks in our group are doing haploid genotype calling and have noted that the vcf_to_fasta.py script does not work on this input. This patch fixes the specific problem of not accepting haploid genotype calls.

-G

MikkelSchubert commented 7 years ago

Hi Graham, Thank you very much for the patch! I'll try to wrap up a new release this weekend, once I've had time to fix a few other small issues.

Cheers, Mikkel