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Just wanted to suggest the addition of the 'sbml' topic tag for this GitHub repository.
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We need to have an ADT for deserializing SBML expressions into a julia type that we can use to generate julia functions for custom rate laws in the petri nets.
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Web interface:
Simple upload button only:
Steps:
User uploads file:(for now)
file is transfered to a java process:
Java process:
built using SBML api from sbml.org
captures all dat…
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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 report but not the differ…
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It looks like the package lost the ability to export annotations to SBML from [c0763d8](https://github.com/pysb/pysb/commit/c0763d8), possibly during the conversion from manual xml generation to using…
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Simple reader/writer would be handy
- [ ] Reader
- [ ] Writer
- [ ] doc
- [ ] tests
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_From @jjkoehorst on December 21, 2017 6:56_
In a different project we are looking into using Escher in combination with SBML to generate pathway layouts using standardised or home made models. In Es…
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This si a spin of from #6 for the additions of general linear constraints of the form:
`C * v relation d`
Where `C` is a matrix with columns corresponding to model reactions and rows corresponding t…
tpfau updated
6 years ago
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This is a spin of from #6, concerning only the SBML COBRA ID conversion.
Current status is two options:
A: Define a clear conversion scheme between COBRA-ID and SBML ID
B: Add the `fbc` label as a…
tpfau updated
6 years ago
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This may make more sense in minerva, but may be quite fun to write the code using bbop-graph, may turn out to be useful elsewhere.
SIB folks are doing lots of boolean modeling, this would be v cool f…