I tried to use MendelScan on a single vcf file. I created VEP file using ensembl variants effect prediction program.

I'm not quite sure what caused the errors. The VEP file format looked similar to the file that came with the example data. The example data also ran fine without an errors.

I tried to check the position in the VEP file. The variants exists in both vcf and vep file, although the format is different.

What did I do wrong? Am I supposed to create VEP file differently?

Thank you.