-
Hi folks,
MIRA does not currently support distributions of initial conditions and parameters that are specified in SBML.
https://sbml.org/documents/specifications/level-3/version-1/distrib/
…
-
The Yeast v9 GEM: https://raw.githubusercontent.com/SysBioChalmers/yeast-GEM/main/model/yeast-GEM.xml
cause a `parse` error during `_get_reaction_system`
```julia
julia> prn, cb = load_SBML("yeas…
-
### 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…
-
**Is your feature request related to a problem? Please describe.**
I am trying to import a SMBL file.
In particular [this one](https://raw.githack.com/BioSystemsUM/MEWpy/6a5031d6b8c654e15b7b53778d7a…
-
There are ~1000 curated models on https://www.ebi.ac.uk/biomodels/, mostly in SBML format.
A good number of these are relevant for neuroscience, e.g. https://www.ebi.ac.uk/biomodels/BIOMD0000000118…
-
**Background**
* [SBML](https://synonym.caltech.edu) and [CellML](https://www.cellml.org) are now widely adopted for defining and sharing models of subcellular biological processes.
* @MauriceHendri…
-
We test for error 99107 in the file 99107-fail-01-06-10102.xml, but the problem it detects is, I believe, not actually an error. The file defines a new namespace 'appear' and adds a listOfShapes in t…
-
### Description of the issue:
When searching for inflow reactions, only irreversible inflow reactions are included in the output. When looking for outflow reaction, both irreversible outflow and reve…
-
Hi all,
I just read the LASSIE paper and wanted to compare the results to libroadrunner I was involved with
See:
https://www.ncbi.nlm.nih.gov/pubmed/26085503
which achieves in my own experience ~5…
-
In SBML spec, there is a definition of 'species':
Species: A pool of entities of the same kind located in a compartment and participating in reactions (processes). In biochemical network models, comm…