Simonas Marcišauskas

RAVEN also supports [CELLO](http://cello.life.nctu.edu.tw/). It is online-based tool, so you run it online, save the text output in your computer and then use it as input to assign localization. The...

I tried to test this PR with the iAL1006 model from `tutorials`. Due to the suggested changes in this PR we have a new problem - there are many `rxns`...

@tpfau, `xyzMiriams` fields are mainly beneficial for semi-automatic model reconstruction from KEGG (and now also MetaCyc). However, such format may be changed if necessary. My quick idea would be to...

@tpfau, thank you for a comprehensive explanation. I reckon it is okay to abolish numeric `metComps` field. A numeric `metComps` field is mainly needed by `predictLocalization` function, but since there...

Nice idea! Should we consider using delta G values to determine reaction reversibility? At least, it would be nice to have such function in RAVEN beyond MetaCyc reconstruction module

Not sure about SEED, but I recall that GEMs with reaction reversibility info determined from delta G had feasibility problems. Let's think and discuss about this functionality over weeks before...

Reaction specific delta G values can be stored in `modelSBML.reaction.notes` while using e.g. "deltaG:" identifier string

@Hao-Chalmers, there must be a basis why MetaCyc curators decided to include delta G values upon pH 7.3, not pH 7. Could you please write a quick question to them...

We should also check `model.genes` as I saw some rare examples a couple of years ago of genes having "G_" in the beginning. This functionality seems to be a little...

I suggest to put the contribution guidelines in `.github` folder. In RAVEN Wiki we can add the reference to that document, no need to add it there as well.