Eduard Kerkhoven

The model seems to contain a `grRules` field. The model you have might be in [RAVEN](https://github.com/SysBioChalmers/RAVEN) format, you could then use the RAVEN provided function `ravenCobraWrapper` to convert the model...

That's a good idea. It's not that straightforward where this information should be stored. In the long run it should ideally be kept in the model file, and not just...

The number of protein subunits that make up a protein complex. It is not always just 1 copy of each subunit. See for instance pyruvate dehydrogenase: https://www.ebi.ac.uk/complexportal/complex/CPX-3207:  This would...

But that is if GECKO is the only purpose. GECKO should be modified to be able to deal with such information anyway (it currently assumes 1 copy per subunit), but...

@cheng-yu-zhang could you please explain a bit what was exactly done in this PR (and the other two that you opened)? Like where did you get the information from, why...

I have reorganized the data, to fit #302. - [x] Make sure that there are no more duplicated metabolites (3f1646d) - [x] Make sure that there are no unused metabolites...

I have refactored the script and location of datafiles to match the generic curation format introduced in #313. See `code/modelCuration/v8_6_1.m` for how the model curation is performed. --- I reiterate...

Indeed, this has recently been done nicely for new genes that @cheng-yu-zhang has been introducing ([example](https://github.com/SysBioChalmers/yeast-GEM/blob/63e1de01e2881d3fcf384984e8ab07d870c980ac/data/modelCuration/complexAnnotation/complexAnnotationGenes.tsv), uniprot column), having this for all genes would be useful, particular with ec-models in...

Looking at the information that can be parsed from Uniprot, this can probably quite easily be implemented.

RAVEN has functionality to run and parse WoLF PSORT. I've never tried it, and it runs on unix only, but could be useful. Additional predictLocalization function can actually assign localization,...