SBML Team

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39 repositories

libCombine
Public
a C++ library for working with the COMBINE Archive format
C++
•
BSD 2-Clause "Simplified" License
•5•8•10•1•Updated Oct 25, 2024Oct 25, 2024
python-libsbml
Public
Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.
package python3 libsbml sbml python
Python
•
Other
•6•21•7•0•Updated Oct 25, 2024Oct 25, 2024
libsbml
Public
LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (SBML). It offers language bindings for C, C++, C#, Java, JavaScript, MATLAB, Perl, PHP, Python, R and Ruby.
api library systems-biology libsbml sbml
C++
•
Other
•29•41•41•3•Updated Oct 10, 2024Oct 10, 2024
sbmlteam.github.io
Public
The source code and issue tracker for the SBML.org website.
simulation xml systems-biology standards simulation-modeling sbml simulation-model
HTML
•
GNU Lesser General Public License v2.1
•4•9•20•0•Updated Aug 24, 2024Aug 24, 2024
moccasin
Public
MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.
conversion differential-equations ode-model python matlab systems-biology ode sbml
Python
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Other
•2•10•25•1•Updated Aug 21, 2024Aug 21, 2024
sbml-specifications
Public
The specification documents for SBML.
TeX
•3•6•21•2•Updated Jun 14, 2024Jun 14, 2024
deviser
Public
Design Explorer and Viewer for Iterative SBML Enhancement of Representations
python automation code-generator code-generation xml systems-biology libsbml sbml
C++
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GNU Lesser General Public License v2.1
•5•6•32•2•Updated Apr 22, 2024Apr 22, 2024
sbml-test-suite
Public
The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML support provided in a software package.
testing systems-biology test-automation ode stochastic testing-tools sbml testing-framework sbml-models simulation
JavaScript
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Other
•12•23•13•0•Updated Feb 23, 2024Feb 23, 2024
libSBML-dependencies
Public
Set of dependencies for compiling libSBML
automation visual-studio sbml cmake libsbml batch-files cmake-script
C
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Other
•1•3•0•0•Updated Oct 23, 2023Oct 23, 2023
QtDeviser
Public
DEVISER Edit, an UI for defining DEVISER input files
qt code-generation xml libsbml sbml sbml-l3
NSIS
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GNU Lesser General Public License v2.1
•0•3•0•0•Updated Oct 7, 2023Oct 7, 2023
SBMLToolbox
Public
An open-source toolbox for working with SBML in MATLAB
simulation matlab systems-biology sbml
MATLAB
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Other
•1•2•0•0•Updated Feb 6, 2023Feb 6, 2023
jsbml
Public
JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (the Systems Biology Markup Language) and data streams. It is an alternative to the mixed Java/native code-based interface provided in libSBML.
java api library parser-library modeling systems-biology sbml
Java
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GNU Lesser General Public License v2.1
•24•37•28•0•Updated Jan 3, 2023Jan 3, 2023
specifications-bib
Public
TeX
•1•0•0•0•Updated Aug 15, 2022Aug 15, 2022
specifications-tex
Public
PostScript
•0•0•0•0•Updated Apr 27, 2022Apr 27, 2022
liblx
Public
The XML parser portion of LibSBML as a separate library.
C++
•
Other
•2•0•5•2•Updated Oct 7, 2021Oct 7, 2021
sbml-spatial-models
Public
Repository of models to test exchange of sbml-spatial models.
sbml
MIT License
•2•5•0•1•Updated Sep 17, 2021Sep 17, 2021
SBMLreporter
Public
SBMLreporter provides a way to read the contents of XML-based SBML files. This is helpful and important for, e.g., error detection, proofreading and model communication. SBMLreporter is a new implementation of SBML2LaTeX.
sbml
Java
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GNU Lesser General Public License v2.1
•1•4•5•0•Updated Aug 17, 2021Aug 17, 2021
labels-try-3
Public
0•0•1•0•Updated Dec 2, 2020Dec 2, 2020
sbml-level-3-paper-overleaf
Public
Copy of Overleaf project for the SBML Level 3 paper submitted to MSB
sbml
TeX
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Creative Commons Attribution 4.0 International
•0•1•0•0•Updated Jun 25, 2020Jun 25, 2020
logos-and-promos
Public
SBML logo artwork and their terms of use
sbml
PostScript
•0•1•0•0•Updated May 6, 2020May 6, 2020
sbml-level-3-paper
Public
Overall repository for the SBML Level 3 paper submitted to MSB
sbml
TeX
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Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Apr 27, 2020Apr 27, 2020
sbml-level-3-paper-response-letter
Public
Response to reviewers for SBML Level 3 paper submitted to MSB
sbml
TeX
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Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Apr 27, 2020Apr 27, 2020
sbml-level-3-paper-diff
Public
Setup for running latexdiff on the SBML Level 3 paper
sbml
Makefile
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GNU Lesser General Public License v2.1
•0•0•0•0•Updated Apr 27, 2020Apr 27, 2020
libsbml-build-scripts
Public
Scripts and utilities used to build and deploy a libSBML release
sbml
Makefile
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GNU Lesser General Public License v2.1
•0•1•0•0•Updated Mar 13, 2020Mar 13, 2020
cdroms-2003
Public
Archive of CD-ROMS we produced in 2003
HTML
•
GNU Lesser General Public License v2.1
•0•0•0•0•Updated Mar 11, 2020Mar 11, 2020
template
Public template
Template repository for software projects by the SBML Team
template-project
Shell
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GNU Lesser General Public License v2.1
•0•1•0•0•Updated Mar 11, 2020Mar 11, 2020
jib-paper-2019
Public
Paper published in the Journal of Integrative Bioinformatics in 2019
TeX
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Creative Commons Attribution 4.0 International
•0•0•0•0•Updated Mar 10, 2020Mar 10, 2020
mathml-tests
Public
Tests for infix-to-mathML and mathML-to-infix for both libsbml and jsbml.
sbml
C++
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Other
•0•2•0•0•Updated Feb 27, 2020Feb 27, 2020
labels-try-2
Public
0•0•0•0•Updated Feb 26, 2020Feb 26, 2020
labels-try-1
Public
0•0•2•0•Updated Feb 26, 2020Feb 26, 2020