VEP is returning ClinVar fileds bank (-- custom annotation with VEP)

0

Hi

I am trying to use VEP to annotate a vcf file and also add ClinVar data to it:

vep --dir_cache $VEP_CACHEDIR 
-i path/to/input/input.vcf --format vcf 
-o path/to/output/output.vcf --vcf 
--cache path/to/cachedir/ 
--offline --assembly GRCh37 
--custom path/to/clinvar/clinvar.vcf.gz,ClinVar,vcf,exact,0,CLNSIG,CLNREVSTAT 
--everything --force_overwrite --fork 16

Although CLNSIG and CLNREVSTAT columns are being added to the vcf file. But all cells are blank (more than 90% of my variants have been previously reported in the ClinVar)

Thank you in advance for your help.


ClinVar


VEP


annotation

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