sbmlutils

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Serialization to diffrax

3

Serialize SBML ODEs to diffrax/Jax format.

matthiaskoenig

* Units are not serialized: `captot_urine = cap_urine + capss_urine # [] ` * no dx/dt should be generated for state variables calculated via assignment rules: `d captot_urine/dt = 0...

matthiaskoenig

Currently the initial assignments do not work in the code generator.

matthiaskoenig

Names of objects would be very helpful in better understanding the created SBML ODEs.

matthiaskoenig

Not parsing character codes in ontology links?

4

#### Problem description Please explain: If an annotation has character codes in the ontology ID then you get an error. For example, in the SBML: Note the CHEBI id is...

jpsluka

Separate report from base package.

matthiaskoenig

Event assignments missing from table.

matthiaskoenig

Viewing differential equations in SBML report (ODE viewer)

6

Hi @matthiaskoenig, Could you please let me know if we can view the differential equations in the report that is generated via SBML4HUMANS? I could view the fluxes in the...

DeepaMahm

matthiaskoenig

Spatial models could be very useful in the context of image quantification and simulation. Requires an actual use case before starting work.

matthiaskoenig