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### Description of the issue:
Richelle et al., in a recent [research article](https://www.sciencedirect.com/science/article/pii/S2667237521000850#!) suggested an approach for interpretation of omics …
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### Checklist
- [X] There are [no similar issues or pull requests](https://github.com/opencobra/cobrapy/issues) for this yet.
### Problem
I been trying to work on some metagenome analysis with cobr…
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This is an issue I think is due to updates in `cobra`. With `cobra` version 0.21.0 `create_smoment_model_reaction_wise_with_sbml()` runs in a reasonable amount of time. However, once I use an environm…
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Hi Diener,
would it possible to provide detailed description on the procedures that generated those GEM reference database? I found it quite useful while I am hesitating to use it in my manuscript wi…
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Hi,
The scFEA is an amazing method for metabolic analysis, it helps me a lot. But I am wondering whether I can add other more pathways to the original metabolic pathways, such as arachidonic acid me…
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What needs to be done to use a different metabolic model (e.g. Recon3D)? is it enough if I just add a new dir with xml model into the Resources and a new model option in arg-parsing of main or is ther…
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* **GO term ID and label for which you request a new superclass**
Missing parent: GO:0000162 tryptophan biosynthetic process
* **New superclass (parent) suggested**
is not a descendant…
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Hello! I have some problems running metabolic soft, I can get diagrams of element cycles, but there are no output Metabolic_Sankey_diagram.pdf, Functional_network.pdf,Could you please take a look?
co…
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Hi,
When you try to run the command `perl METABOLIC-G.pl` without any arguments, the software attempts to run and give a log such as:
```
mkdir: cannot create directory ‘/home/michoug/Softwares/M…
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Hello,
By creating models for secondary metabolites biosynthesis I realized that part of the ChEBI chemicals are not available with the tool.
As an example, within the P. expansum patulin biosynthes…