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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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**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…
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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…
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I am using SBML validation a lot. Often it is difficult to figure out what object creates the error in larger models. It would be very helpful to provide the `sid` and perhaps also the name `name` att…
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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…
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With SBML removed (#3) we need a simple scheme to read/write models
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Import a model / biochemistry from an SBML file.
@samseaver I think you have existing code for this?
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Dear SBGN team,
i wanted to use SBGN for the first time and tried to convert my SBML model. However, I encountered several pitfalls that made it impossible for me:
1. The link for the only convert…
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We should be able to load models in AEON format and perhaps also extend the format (in a standardized way) to accommodate new components of the sketch. It already supports the model annotations, which…
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Supporting composite models with grouped nodes.