VCF annotation of Glycine max

Question

[kaynat_shaukat]

Hey! i want rs_ids in my vcf file.. i have already created the database for Glycine maxv2.1 and generated the fasta file.. kindly guide me how to annotate vcf file using this fasta file and get the rs_ids Thanks

[WouterDeCoster]

i have already created the database for Glycine maxv2.1 and generated the fasta file..

Please elaborate: Which database? Created how? Generated which fasta file?

Answer 1

[WouterDeCoster]

I have never heard of glycine max, but you can do this with SnpEff and probably a bunch more tools.

See also

• rsID from VCF
• Update 'ID' column in VCF file using BCFtools annotate

[kaynat_shaukat]

Glycine max is scientific name of Soybean plant