ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.
☆23Jan 28, 2025Updated last year
Alternatives and similar repositories for ModelPolisher
Users that are interested in ModelPolisher are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++☆19Oct 8, 2024Updated last year
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆13Aug 21, 2024Updated last year
- The standard for open-source GEMs on GitHub☆21Oct 26, 2023Updated 2 years ago
- Registry of containerized biosimulation tools that support a standard command-line interface☆15Apr 9, 2026Updated last week
- memote – the genome-scale metabolic model test suite☆146Aug 14, 2025Updated 8 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- cy3sbml: SBML for Cytoscape 3☆15Jan 22, 2026Updated 2 months ago
- Ontology of algorithms for analyzing biological models, their parameters, and their outputs☆11Mar 31, 2026Updated 2 weeks ago
- A collection of M models downloaded from published studies☆17Feb 18, 2016Updated 10 years ago
- The consensus GEM for Saccharomyces cerevisiae☆120Feb 26, 2026Updated last month
- The Systems Biology Simulation Core Library (SBSCL) provides an efficient and exhaustive Java implementation of methods to interpret the …☆25Mar 26, 2026Updated 3 weeks ago
- High level functionality to support and simplify metabolomics data annotation.☆20Mar 19, 2026Updated 3 weeks ago
- A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard f…☆16Mar 4, 2026Updated last month
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆28Mar 13, 2023Updated 3 years ago
- Computational method for Comparative ReConstruction of genome-scale metabolic networks☆22Mar 23, 2018Updated 8 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- cameo - computer aided metabolic engineering & optimization☆123Nov 7, 2022Updated 3 years ago
- JSBML is a community-driven project to create a free, open-source, pure Java™ library for reading, writing, and manipulating SBML files (…☆41Mar 26, 2026Updated 3 weeks ago
- COBRApy is a package for constraint-based modeling of metabolic networks.☆556Apr 8, 2026Updated last week
- DeepECtransformer☆29Oct 20, 2023Updated 2 years ago
- The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…☆25Dec 10, 2020Updated 5 years ago
- A Java-based software for visualizing and translating the KEGG PATHWAY database. Conversion of KGML files into BioPAX, SBML, GraphML, GML…☆21Jun 26, 2023Updated 2 years ago
- Generate biomass objective function stoichiometric coefficients for genome-scale models from experimental data☆27Jul 6, 2023Updated 2 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
- Delivering the power of programming with the simplicity of spreadsheets☆30Aug 22, 2017Updated 8 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Python package for building SBML models without needing to use libSBML.☆11Aug 18, 2021Updated 4 years ago
- A simplified python interface to COPASI.☆25Mar 19, 2026Updated 3 weeks ago
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆24Apr 6, 2026Updated last week
- Python package for working with PEtab files☆16Mar 31, 2026Updated 2 weeks ago
- A yFiles-based editor for SBGN diagrams written in Kotlin☆13Apr 2, 2020Updated 6 years ago
- refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).☆18Mar 24, 2026Updated 3 weeks ago
- Package to create MOVIE Plots☆12Oct 31, 2019Updated 6 years ago
- A package to cluster and visualise MS/MS spectral data☆11Feb 26, 2021Updated 5 years ago
- CarveMe: genome-scale metabolic model reconstruction☆199Sep 12, 2025Updated 7 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- COMBINE-compliant implementation of the Mycoplasma genitalium whole-cell model☆10Feb 29, 2016Updated 10 years ago
- ☆15Oct 15, 2025Updated 6 months ago
- A collection of awesome lipidomics tools and resources☆17Jun 23, 2022Updated 3 years ago
- High-level, high-performance, constraint-based reconstruction and analysis in Julia☆63Apr 26, 2023Updated 2 years ago
- a C library for symbolic and numerical analysis of a system of ordinary differential equations (ODEs) derived from a chemical reaction ne…☆24Mar 15, 2018Updated 8 years ago
- A tool to search for gadgets, operations, and ROP chains using a backtracking algorithm in a tree-like structure☆19Jun 13, 2023Updated 2 years ago
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆13Aug 20, 2025Updated 7 months ago