Zachary Konkel

This Git is not being maintained, so I've implemented a general orthofiller update [here](https://gitlab.com/xonq/OrthoFiller)

This error suggests that OrthoFiller is recognizing your paths, however, there are some coordinates in your `gtf` that are referencing areas in your genome that do not exist. How did...

@14zac2 yeah, so OrthoFiller requires your `gtf` to be perfectly formatted beforehand. that program may be doing it's job, but it may leave discrepancies orthofiller cannot handle. I have found...

> Thanks, @xonq ! I fixed my gtf with gffread (which seems to do a pretty good job at standardizing gtf files by making them as simple as possible). I...

You are correct about this error. I have an updated version of OrthoFiller at https://gitlab.com/xonq/OrthoFiller that addresses these dependency issues and others.

Specifically, this is BioPython. Not sure if much can be done without altering the BioPython code