Is it possible to call STRs with graphtyper?

DecodeGenetics / graphtyper

Population-scale genotyping using pangenome graphs

http://dx.doi.org/10.1038/ng.3964

MIT License

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Is it possible to call STRs with graphtyper? #147

Open scienception opened 6 months ago

scienception commented 6 months ago

What would be the arguments/parameters in such case?

Thank you!

hannespetur commented 4 months ago

Hey,

running graphtyper genotype normally should output STRs among other small variants. If you already have STRs in a VCF that you want to force call, you can do that with the --vcf option.

Best, Hannes