matthiaskoenig / cy3sbmlView external linksLinks
cy3sbml: SBML for Cytoscape 3
☆15Jan 22, 2026Updated 3 weeks ago
Alternatives and similar repositories for cy3sbml
Users that are interested in cy3sbml are comparing it to the libraries listed below
Sorting:
- Python package for building SBML models without needing to use libSBML.☆10Aug 18, 2021Updated 4 years ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆12Aug 21, 2024Updated last year
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆23Jan 9, 2026Updated last month
- A web application to visualize and edit pathway models☆59Feb 5, 2026Updated last week
- Python utilities for SBML☆41Jan 22, 2026Updated 3 weeks ago
- The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML suppor…☆26Dec 3, 2025Updated 2 months ago
- Ontology of algorithms for analyzing biological models, their parameters, and their outputs☆11Dec 2, 2024Updated last year
- ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.☆23Jan 28, 2025Updated last year
- A tool for creating Python implementations of SBML models.☆15Oct 5, 2022Updated 3 years ago
- COMBINE-compliant implementation of the Mycoplasma genitalium whole-cell model☆10Feb 29, 2016Updated 9 years ago
- The BiGG Models website server☆88Nov 7, 2019Updated 6 years ago
- Fostering open source collaboration with technical writers.☆10Aug 17, 2019Updated 6 years ago
- Python package for working with PEtab files☆16Feb 4, 2026Updated last week
- A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard f…☆16Jul 9, 2025Updated 7 months ago
- A Java-based software for visualizing and translating the KEGG PATHWAY database. Conversion of KGML files into BioPAX, SBML, GraphML, GML…☆20Jun 26, 2023Updated 2 years ago
- JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (…☆40Jan 23, 2026Updated 3 weeks ago
- Curation and analysis of metabolic models☆36Aug 8, 2023Updated 2 years ago
- A simplified python interface to COPASI.☆25Jan 13, 2026Updated last month
- ☆20Jul 12, 2023Updated 2 years ago
- ☆19Nov 21, 2025Updated 2 months ago
- Application for hosting gene expression and ontology data with Shiny☆17Jan 8, 2018Updated 8 years ago
- COBRAdb loads genome-scale metabolic models and genome annotations into a relational database. It already powers BiGG Models, and it is a…☆20Oct 29, 2019Updated 6 years ago
- Python library for calling Cytoscape Automation via CyREST☆85Feb 3, 2026Updated last week
- Repository of tutorials for The COBRA Toolbox☆24Feb 6, 2026Updated last week
- CBMPy is a Python based platform for constraint based modelling and analysis.☆19May 12, 2024Updated last year
- StochSS - Software as a Service for modeling, simulation, inference and analysis of biochemical models. https://live.stochss.se☆25Jan 28, 2026Updated 2 weeks ago
- Teaching materials for cobrapy, cameo, escher and DD-DeCaF☆26Jul 12, 2022Updated 3 years ago
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆24Dec 4, 2025Updated 2 months ago
- libRoadRunner: A high-performance SBML simulator☆56Jan 10, 2026Updated last month
- MetaboLights is a database for Metabolomics experiments and derived information. The database is cross-species, cross-technique and cover…☆23Feb 4, 2026Updated last week
- PyBioPAX: A python implementation of the BioPAX object model☆26May 10, 2024Updated last year
- Program and links to the material for the GloBIAS Training School 2025, Kobe, Japan.☆22Oct 27, 2025Updated 3 months ago
- The official PySCeS project source code repository.☆40Updated this week
- Kyoto Encylopedia of Genes and Genomes (KEGG) NetworkX Topological parser automates downloading, parsing, and converting from a KEGG Mark…☆11May 8, 2024Updated last year
- A COBRApy extension for genome-scale models of metabolism and expression (ME-models)☆35Jan 11, 2019Updated 7 years ago
- The MetaRbolomics book. A review of R packages in BioC, CRAN, gitlab and github.☆34Mar 23, 2021Updated 4 years ago
- One hour lecture to introduce LaTeX to maths undergraduates.☆10Oct 2, 2020Updated 5 years ago
- Vasculature blood flow computation and impact of astrocytic endfeet on vessels☆11Feb 26, 2025Updated 11 months ago
- ☆11Dec 17, 2025Updated last month