How to get HGVS notation of protein form genome snp vcf

Question

[yixinrufeng]

Hi everyone

I want to do variation annotation with PROVEAN (http://provean.jcvi.org/seq_submit.php) on non-module organisms, I have got protein sequence of my study species from MAKER, also got snp VCF file from GATK, but I can not get HGVS notation of protein sequence of my study organisms. Could you please tell me which tools could do this stuff? Thank you very much.

[Titus]

Hi, What do you mean ? Do you want HGVS annotation of protein but for an other organism than Human ?

[yixinrufeng]

Yes， you are right, not for Human.