Add psite estimation with plastid

[pinin4fjords]

Description of feature

See https://plastid.readthedocs.io/en/latest/generated/plastid.bin.psite.html#module-plastid.bin.psite

Add a plastid/psite module to nf-core/modules, and then here.

[JackCurragh]

This is likely a valid tool to use but relating to my recent comment on #24 these older offset predictors don't quite work for certain kinds of samples.

There are a newer kind of P-Site predictors coming about that do it on a read-by-read basis rather than read length-by-read length. For example, psite. The paper has just one figure so you may be able to see how it works for MNase data.

[pinin4fjords]

Thanks! Plastid was specifically requested in our agreement with Altos, but could you make a separate issue for Psite? A quick look suggests it's not in Bioconda yet, so that will be the first job.

[JackCurragh]

Is this still needed for v1.10? What does it add that the tools that we have atm don't provide? It is my understanding that each 'Ribo-Seq specific' tool that we have already does this step in their own way. Is Plastid desired for some other reason?

[pinin4fjords]

Yep, you may be right. I'll remove it from the milestone.