MISSING values option?

[dnil]

Thank you for the good work!

For most lines we are obviously seeing a lot of MISSING values, and hence a lot of redundant INFO keys. Most other annotation programs would default to not output the key if the variant it is found to be missing in the source.

What is the intention here, keep them to be sure the variant was correctly processed? Or be able to lift them out easily? A new INFO key format standard brewing that I'm not aware of? 😊

Of course we can remove them afterwards, but a flag to change this behaviour would be practical, assuming you have a need for them in some applications.

[brentp]

Hi, I see the utility of what you describe. I'd accept a PR that makes this an option.