PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology
☆63Mar 27, 2026Updated last week
Alternatives and similar repositories for PEtab
Users that are interested in PEtab are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Python package for working with PEtab files☆16Mar 31, 2026Updated last week
- High-performance sensitivity analysis for large ordinary differential equation models☆136Mar 31, 2026Updated last week
- Tool to convert an ODE model specified in the YAML format to SBML.☆12Jun 13, 2023Updated 2 years ago
- Model selection for PEtab☆14Mar 30, 2026Updated last week
- A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existin…☆32Mar 31, 2026Updated last week
- 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.
- python Parameter EStimation TOolbox☆269Updated this week
- Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.☆21Dec 15, 2025Updated 3 months ago
- distributed, likelihood-free inference☆217Mar 25, 2026Updated 2 weeks ago
- Create parameter estimation problems for ODE models☆69Mar 28, 2026Updated last week
- 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 4 months ago
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆23Mar 9, 2026Updated last month
- Python utilities for SBML☆41Mar 28, 2026Updated last week
- Models that demonstrate the syntax and functionality of BioNetGen language and simulation tools.☆15May 30, 2023Updated 2 years ago
- PESTO: Parameter EStimation TOolbox, Bioinformatics, btx676, 2017.☆27Mar 2, 2020Updated 6 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Methods for profile likelihood analysis.☆18Nov 4, 2024Updated last year
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Mar 13, 2023Updated 3 years ago
- A tool for creating Python implementations of SBML models.☆15Oct 5, 2022Updated 3 years ago
- LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (…☆56Mar 12, 2026Updated 3 weeks ago
- ☆19Updated this week
- a modeling environment tailored to parameter estimation in dynamical systems☆65Feb 18, 2026Updated last month
- Julia Catalyst.jl importers for various reaction network file formats like BioNetGen and stoichiometry matrices☆27Mar 24, 2026Updated 2 weeks ago
- A simplified python interface to COPASI.☆25Mar 19, 2026Updated 3 weeks ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆13Aug 21, 2024Updated last year
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- SBML differential equation and chemical reaction model (Gillespie simulations) for Julia's SciML ModelingToolkit☆44Mar 30, 2026Updated last week
- Create nice documentation for your MatLab project using doxygen☆15Jul 14, 2019Updated 6 years ago
- LibSBMLSim: A library for simulating SBML models☆13Sep 14, 2021Updated 4 years ago
- Python framework for Systems Biology modeling☆195Mar 30, 2026Updated last week
- A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results☆42Updated this week
- The Systems Biology Ontology (SBO) is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in part…☆11May 16, 2023Updated 2 years ago
- Python package for building SBML models without needing to use libSBML.☆11Aug 18, 2021Updated 4 years ago
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆24Updated this week
- A Python package for benchmarking pathway database with functional enrichment and classification methods☆13Mar 2, 2021Updated 5 years ago
- 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
- Code accompanying the paper 'Manifold MCMC methods for Bayesian inference in a wide class of diffusion models'☆10May 28, 2025Updated 10 months ago
- Spatial bio-chemical reaction model editor and simulator☆19Apr 2, 2026Updated last week
- Universal differential equations for ecologists☆14Mar 24, 2026Updated 2 weeks ago
- A Julia interface to the BARON mixed-integer nonlinear programming solver☆19Mar 27, 2026Updated last week
- Julia interface to the Systems Biology Markup Language (SBML) library☆30Apr 1, 2026Updated last week
- 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