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brentp / vcfanno

annotate a VCF with other VCFs/BEDs/tabixed files
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0973-5
MIT License
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Could vcfanno annotate mutation type ? like frame-shift/Premature-Stop for indel, Synonymous/Stop_nonsyn for snp #88

Closed orangeSi closed 6 years ago

orangeSi commented 6 years ago

Hi~ Thanks for the nice vcfanno~ Could vcfanno annotate mutation type ? like frame-shift/Premature-Stop for indel, Synonymous/Stop_nonsyn for snp.

thanks~ Si

brentp commented 6 years ago

no. this is outside the scope of vcfanno. you can use VEP or snpEff or bcftools CSQ for this.

orangeSi commented 6 years ago

OK, i will try~ thanks~