Repositories list

• 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.

  apilibrarysystems-biology+ 2libsbmlsbml

  C++

  •

  Other

  •28•41•42•1•Updated Nov 23, 2024Nov 23, 2024

• 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.

  packagepython3libsbml+ 2sbmlpython

  Python

  •

  Other

  •6•21•7•0•Updated Oct 25, 2024Oct 25, 2024

• sbmlteam.github.io

  Public
  The source code and issue tracker for the SBML.org website.

  simulationxmlsystems-biology+ 4standardssimulation-modelingsbmlsimulation-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.

  conversiondifferential-equationsode-model+ 5pythonmatlabsystems-biologyodesbml

  Python

  •

  Other

  •2•11•25•1•Updated Aug 21, 2024Aug 21, 2024

• sbml-specifications

  Public
  The specification documents for SBML.

  TeX

  •3•6•23•2•Updated Jun 14, 2024Jun 14, 2024

• deviser

  Public
  Design Explorer and Viewer for Iterative SBML Enhancement of Representations

  pythonautomationcode-generator+ 5code-generationxmlsystems-biologylibsbmlsbml

  C++

  •

  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.

  testingsystems-biologytest-automation+ 7odestochastictesting-toolssbmltesting-frameworksbml-modelssimulation

  JavaScript

  •

  Other

  •12•23•13•0•Updated Feb 23, 2024Feb 23, 2024

• libSBML-dependencies

  Public
  Set of dependencies for compiling libSBML

  automationvisual-studiosbml+ 4cmakelibsbmlbatch-filescmake-script

  C

  •

  Other

  •1•3•0•0•Updated Oct 23, 2023Oct 23, 2023

• QtDeviser

  Public
  DEVISER Edit, an UI for defining DEVISER input files

  qtcode-generationxml+ 3libsbmlsbmlsbml-l3

  NSIS

  •

  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

  simulationmatlabsystems-biology+ 1sbml

  MATLAB

  •

  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.

  javaapilibrary+ 4parser-librarymodelingsystems-biologysbml

  Java

  •

  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

  •

  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

  •

  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

  •

  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

  •

  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

  •

  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

  •

  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

  •

  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

  •

  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++

  •

  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