This script takes vcfs annotated by
- VEP
- GERP
- CADD
- MaxEntScan
- phyloP100way
- phastcons
- gnomad.exomes.2.1 AF, AF_popmax, popmax
- SnpSift Clinvar
- genmod SPIDEX
- genmod inheritance models
It will collect relevant information from VEP-string and put it as detectable flags in INFO-field for genmod score
run as:
./modify_vcf_scout.pl input.vcf > output.vcf