impweb

Web application to provide access to machine learning and other tools for assisting with membrane protein expression

The code for score calculation is handled by other codes (e.g. clemlab/IMProve)

Start workers with

FLASK_APP=webapp.py flask rq worker impweb-high impweb-med impweb-low

TODO

• output visualization

  • Table with outcomes
  • wrt nycomps, ecoli datasets
  • find metadata, run Pfam, see if exists in NYCOMPS, prerun
  • Button to download spreadsheet with features, score, names, and sequences

• Sanitization

  • Javascript input santization? -- minimum length
  • Accept uniprot id as input

• Methods

  • Run mmseqs to find coding sequences
  • Would be cool to also provide scores from TMCrys method
  • Find protein homologs and then coding sequences (seems like a bit of work)
  • Recoding sequences (experimental)
  • Pointing in sequence space (experimental)

• REST API

  • Should be fairly easy to finish up

• Run all from CLI