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The following code
```python
import dingo
dingo_model = dingo.MetabolicNetwork.from_sbml("ext_data/e_coli_core.xml")
sampler = dingo.PolytopeSampler(dingo_model)
samples = sampler.generate_stead…
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load wikipathways
load recon3d
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Opening this issue on behalf of Anush @anushchp:
#### Problem description
> It complains that O2 consuming reactions don’t have fixed bounds. Thermodynamics (using pyTFA: https://github.com/EPFL-…
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Can this be used to integrate only metabolomics data in bacteria metabolic model ?
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## Friday, October 12
### Project Background
#### Prior Sample/Data Processing
* Samples collected from marine environments around the world
* Water sample collected
* Filtered to isolate vir…
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In the paper it is mentioned that "An advantage of
our approach is that diffusion can be directly guided by function classifiers that operate in sequence space. We first
sought to guide the network …
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Dear Karsten Wüllems,
I’m a Ph.D student in France on Brassica napus (rapeseed) specialized metabolites against pathogens. I want to apply your pipeline “Analysis of GRaph mapped Image data NEtwor…
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## Short description of the problem
KeyError: 'reaction_network_ko_annotations_hash' when running `anvi-reaction-network`
## anvi'o version
```
Anvi'o .......................................: …
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Hi,
I am trying to perform GO enrichment analysis for non-model plants. Please let me know if I can use GO_MWU with non-model species for GO enrichment analysis.
I tried to download a gaf file (a…
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Hi Cecilia!
I have been having the same issue described in the Web app error #8 issue conversation, but was having trouble generating a shame abundance table with all of KEGG metabolites using the …