I wanted to annotate my vcf file with the following fields:
- Gene symbol
- Functional effect (stop-gain, frameshift etc.)
- Allele Frequency from Gnomad
I downloaded the gnomad vcf file (v 3.1) and tried to annotate my vcf with it (using snpeff/snpsift), but I could only see the allele frequency in the gnomad vcf file. Is there a downloadable vcf database that can provide me with the three fields above?