I want to annotate my vcf file against COSMIC database using SnpEff. How can we configure SnpEff to annotate a dataset using a custom database.
You can use SnpSift. If you can make a custom vcf, you can use that to annotate the SNP's
EDIT: Check out this as well
Thanks for your prompt reply. The problem is that I am new to this field and need some sort of documentation from where i can read the instructions and follow suite. Can you help me with the same ?
Ideally, start with reading Snpsift documentation itself as I mentioned above. Go step by step, like the first step would be looking for how to create the required vcf and from where. "Google" is your best friend. I am sure somebody has already did that.
Post specific questions on Biostars.