-
It would be great to have the feature of a PEtabSDEProblem, where the model is not a ODe but a SDE.
Maybe for a start, supporting the conversion of a SBML model to an `SDEProblem` would be a good st…
-
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…
-
Specifically, the call:
df.set_index('Time')
Causes an exception in Pandas, as it will find two Columns named "Time".
The example SBML model attached has a model with id="s23" and name="Time"…
-
**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…
-
Hi,
I am trying to read an SBML file into pysb using the model_from_sbml function. An example of the code I am running is as follows:
`from pysb.importers.sbml import model_from_sbml
pysb_model = m…
-
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…
-
Import a model / biochemistry from an SBML file.
@samseaver I think you have existing code for this?
-
Hi,
I'm not entirely sure, if this is the right place to discuss this. if not it would be great if someone could point me to the appropriate place.
I'm currently thinking about SBML IO and SBML Id…
tpfau updated
6 years ago
-
The following are the results of running the latest version of MEMOTE (0.17.0) on the latest version of the Human-GEM.xml (v1.19.0 commit "chore: new version"):
[index.html.zip](https://g…
-
Hello everyone,
I found a problem trying to import an SBML model (https://www.ebi.ac.uk/compneur-srv/biomodels-main/MODEL1608100001). It seems the SBML file has something invalid `SyntaxError: inva…