I am using Variant Effect Predictor from Ensembl and I couldnt find notes on using it on multiple vcf files
I have some 1001genome data (A. thaliana) I want to analyze for my target genes , but I couldnt find a way to run it on multiple vcf files provided there.
Is there a way to do it?
Is there another program you would recommend?
I am trying to see deletions/SNPs/CNVs in around 300 genes on around 500 VCF files.