calculate gene / interval is missing

[mjlarsen]

Hi
I can see that earlier versions of change the change calculate contained both gene and interval as subcommands, however in the recent version only contains "mean" as the only subcommand.
Is that by purpose ?

Thank you for providing a version useful peace of software.

/Martin

[robinandeer]

Hey!

Happy you find Chanjo useful :)
I'm sorry for being unresponsive.

My idea was to scale back on functionality in the latest major release and add back features one-by-one but haven't had time as of late :/

I will keep this issue open as a reminder that these features are requested!

[moonso]

Hi @mjlarsen ,

unfortunately calculate interval will not be possible with the current setup of chanjo.
At the moment only the transcripts and some information about exons are stored, the database grew to much when storing coverage for each base.
I have added functionality to calculate mean coverage for all transcripts in a gene which should give some indication on the average coverage in a gene.