snpEff and SIFT calculation

Question

[misterie]

Hi,

I annotated my VCF files using snpEff by creating new database (I use own assembly and gtf file). I would like also to calculate SIFT (prediction of consequence in missense variant). I found, that I can do this using snpSift, but I see that I need to use dbNSFP that is dedicated for human genome... How can I calculate sift for my variants (VCF) using my own assembly and gff?

Thank you!

[estpallag]

Hello, I would have the same enquire. I am working with horse genome, how could I use my SnpEff to calculate the SIFT? Thanks,