bionode-seq features as Atom.io plugin

[ilevantis]

It would be useful to have some of the bionode-seq features in Atom for playing with DNA, RNA, AA sequences in much the same way as https://packagecontrol.io/packages/BioPythonUtils for Sublime Text.

I think some useful features would be:

• reverse complement selected DNA/RNA sequence
• translate selected DNA/RNA sequence (using standard genetic code)
• backtranslate AA sequence to DNA/RNA
• sequence search that ignores newlines and space characters and optionally also looks for reverse complement

[thejmazz]

Ooooh neat idea!

I'm actually working on a (neo)Vim plugin for MSA atm, heres ClustalW vs Muscle on some blasted homologs for AT3G27350 from A. thaliana:

Wouldn't mind separating out common pieces so an Atom one can be made as well.

Planning on adding bionode integration later - probably send buffer as stdout into a bionode tool's stdin or something, read back output.

I guess your suggesting Atom because it is JS based, so shouldn't be too hard to wire up some functions.

[ilevantis]

I guess your suggesting Atom because it is JS based, so shouldn't be too hard to wire up some functions.

Yes, that was my thinking.

Your neoVim plugin looks really cool, though I'm not sure how useful I would find MSAs in a text editor but the more bio plugins for Atom, the better IMO.