Add some cli

[arnaudbore]

Hey !
Would you be interested in adding some cli ?
It would be awesome if we could just call "ants_mouse_brain_extraction -h" for example directly from the docker.
What do you think ? I can quickly take care of that if I have a list of cli you would like to offer.
Best,
Arnaud

[ntustison]

Hey @arnaudbore , thanks for the offer. That's great but I'll defer to @cookpa who's been handling this sort of thing.

[cookpa]

I'm working on other projects for a bit but I do like the sound of this