prefix.exonic_variant_function is empty

[yanwuanxin]

When I tried to annotate the structural variation, the file of ‘all.anno.exonic_variant_function’ was empty and there were no errors

[kaichop]

use table_annovar to perform annotation, then see what are the warning/notice message and what is the final output file.

[leiwang567]

Hello, I have encountered the same issue. Have you managed to resolve it? Looking forward to your reply!

[kaichop]

For structural variants, generally there is no exonic_variant_function since specific amino acid changes cannot be computed. If it is very small indels then it is possible to have exonic_variant_function. In any case, use table_annovar, do not use annotate_variation, if you are a new user.