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@jmdetloff here's some starting points
## Goal
A UI which enables users to quickly simulate models under alternate conditions (e.g., knockout a gene, change the initiation concentration of a drug,…
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= Description =
- Integrate required words of the KiSAO ontology in the corresponding Simulation-derived classes.
= Context =
- KiSAO is an ontology of kinetic simulation algorithms; it is used for …
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### Contact Details
_No response_
### Location
runBiosimulations
### What happened?
Tried the latest version of a biomodels OMEX file; got this error. Last time it was a SED-ML validation error,…
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Something about the ci that is supposed to check if the zip bundle changed and, if so, commit it, is broken. Use https://github.com/SED-ML/sed-ml.github.io/tree/test-ci-for-changed-example for testin…
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Presently, SED-ML supports four specific types of operations on models
- SteadyState
- OneStep (of a time course)
- UniformTimeCourse
- Parameter estimation
This excludes many other types of an…
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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…
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Data generators are only needed for data that is actually on a TSD graph or histogram. They should be generated as needed and removed when no longer in use.
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The attached Copasi file generate the attached SED-ML file. In the SED-ML, we have:
where 'ds_4_task3' doesn't have a label.
Is this an issue…
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SED-ML relies on URNs to indicate the language of each model. This functions much like a dictionary which defines a set of recognized languages.
At present, the curated dictionary is limited. It e…
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### Description of the issue:
The [SBML](http://sbml.org) is a declarative file format that specifies model components, structure, and interaction of those components. But it does not directly specif…