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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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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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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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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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Hello, I am trying to create a model of Macaca Mulatta (mmul) using MetaDraft. I have the `.faa` file for mmul, along with a Homo Sapien `.gbff` file and an SBML file (Recon3D from the BiGG database).…
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Create overview table like the one below for locally ran `LEMS_NML2_Ex9_FN` model.
- [x] run with biosimulators docker locally (on all the different engines)
The resulting minimal omex file SBML…
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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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Supporting composite models with grouped nodes.
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Current export menu is implemented for exporting SBGNML maps to other formats such as SBML, SIF etc. and they should be working well. However, when we added other formats, SIF and SBML, we didn't put …