Deformed VCF header and VEP

Question

[plink_9857]

I am using VEP to annotate VCF files. One VCF file has a deformed header that does not include the VCF format version information thus causing an error message to generate from VEP. How do I fix the deformed VCF header? I don't know who generated it, therefore, I can't get extra help from its source.

[Ram]

Try and deduce the VCF version from the 4.1, 4.2 and 4.3 version documentation. Safest best would be v4.2. You should then be able to add a header line manually.

Answer 1

[Astrid_Ensembl]

Hello

Please email your file and the error you got to helpdesk[at]ensembl.org and we can take a look into it.

Best wishes

Astrid
Ensembl Helpdesk