PEtab-dev / PEtabLinks
PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology
☆60Updated last week
Alternatives and similar repositories for PEtab
Users that are interested in PEtab are comparing it to the libraries listed below
Sorting:
- High-performance sensitivity analysis for large ordinary differential equation models☆127Updated this week
- A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existin…☆28Updated this week
- Modeling toolkit for biochemical simulation☆80Updated 9 months ago
- Model selection for PEtab☆13Updated 2 months ago
- Python package for working with PEtab files☆16Updated last week
- Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.☆22Updated 8 months ago
- python Parameter EStimation TOolbox☆262Updated this week
- distributed, likelihood-free inference☆217Updated 4 months ago
- Trust Region Optimization in Python☆28Updated last week
- Python utilities for SBML☆41Updated last week
- Models that demonstrate the syntax and functionality of BioNetGen language and simulation tools.☆15Updated 2 years ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆12Updated last year
- a modeling environment tailored to parameter estimation in dynamical systems☆62Updated 3 months ago
- A simplified python interface to COPASI.☆24Updated last month
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Updated 2 years ago
- COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.☆115Updated this week
- Rule-based modeling framework☆65Updated 5 months ago
- PESTO: Parameter EStimation TOolbox, Bioinformatics, btx676, 2017.☆26Updated 5 years ago
- Dynamic dispatch of a list of command-line tasks, locally or on a cluster. Supports retrying failed tasks, and adding/removing compute re…☆46Updated last week
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆23Updated last month
- Python Environment for Modeling and Simulating Biological Systems☆128Updated 3 weeks ago
- StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks☆42Updated 4 months ago
- High-level, high-performance, constraint-based reconstruction and analysis in Julia☆62Updated 2 years ago
- Encoding Dynamic Flux Balance Analysis in SBML☆12Updated 5 years ago
- Tool to convert an ODE model specified in the YAML format to SBML.☆12Updated 2 years ago
- Python framework for Systems Biology modeling☆188Updated 3 months ago
- A template repository for how I structure my scientific research☆100Updated last year
- The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML suppor…☆26Updated 3 months ago
- libRoadRunner: A high-performance SBML simulator☆55Updated this week
- Simulate biological cells☆22Updated 3 weeks ago