SGT and Genotype in strelka output
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5.0 years ago
Shicheng Guo ★ 9.4k

Hi All,

I try to use strelka for the first time to call somatic mutation for cancer samples. I meet two problems and hope to receive some help:

  1. I find SGT=GG->GG and SGT=ref->het in INFO column, how to understand them?
  2. FORMAT column don't have genotype, How to obtain genotypes for my samples?

Thanks.

strelka SGT genotype • 1.0k views
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