yaml2sbml-dev / yaml2sbml
Tool to convert an ODE model specified in the YAML format to SBML.
☆12Updated last year
Related projects ⓘ
Alternatives and complementary repositories for yaml2sbml
- Python package for working with PEtab files☆14Updated this week
- PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology☆60Updated 3 months ago
- A tool for creating Python implementations of SBML models.☆13Updated 2 years ago
- 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
- Dynamic modeling and parameter estimation in R☆19Updated this week
- Trust Region Optimization in Python☆26Updated last year
- Advanced Multilanguage Interface to CVODES and IDAS☆109Updated this week
- Encoding Dynamic Flux Balance Analysis in SBML☆11Updated 4 years ago
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆22Updated 11 months ago
- Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.☆19Updated this week
- cy3sbml: SBML for Cytoscape 3☆13Updated 2 years 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…☆23Updated 8 months ago
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆21Updated 3 weeks ago
- Python package for building SBML models without needing to use libSBML.☆10Updated 3 years ago
- This is the fully public version of QSP Toolbox. Please check the README file for the current version of MATLAB that is supported.☆22Updated last year
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Updated last year
- Ontology of algorithms for analyzing biological models, their parameters, and their outputs☆10Updated 3 weeks ago
- Benchmarking and metadata tracking for Python. Extensible, with distributed/cluster support.☆16Updated 3 months ago
- LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (…☆41Updated last month
- Python utilities for SBML☆37Updated 3 weeks ago
- Fast and flexible code for solving the inverse Ising/Potts inference problem☆26Updated last year
- Toolbox for non-linear calibration modeling.☆24Updated this week
- A Python package for benchmarking pathway database with functional enrichment and classification methods☆13Updated 3 years ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆11Updated 3 months ago
- Data-Driven Constraint-based analysis☆12Updated 2 years ago
- A framework to visualize the isoclines of matrix games and quantify uncertainty in structured populations (MATLAB, Java)☆9Updated 3 years ago
- Good Enough Practices in Scientific Computing☆17Updated this week
- Enzyme models that take into account kinetics, allostery and thermodynamics☆27Updated 2 months ago
- MetaWards disease metapopulation analysis and modelling software. Professional geographical SIR model with a flexible plugin architecture…☆13Updated 4 months ago
- Implementation of gene-level rare coding variant association tests targeting allelic series: cases where increasingly deleterious mutatio…☆12Updated last week