yaml2sbml-dev / yaml2sbml
Tool to convert an ODE model specified in the YAML format to SBML.
☆12Updated last year
Related projects: ⓘ
- Python package for working with PEtab files☆14Updated 2 weeks ago
- PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology☆58Updated last month
- A tool for creating Python implementations of SBML models.☆12Updated last year
- A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existin…☆26Updated last week
- Dynamic modeling and parameter estimation in R☆19Updated 3 weeks ago
- Encoding Dynamic Flux Balance Analysis in SBML☆11Updated 4 years ago
- Trust Region Optimization in Python☆25Updated last year
- Advanced Multilanguage Interface to CVODES and IDAS☆108Updated last month
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆22Updated 9 months 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 10 months ago
- Python package for building SBML models without needing to use libSBML.☆10Updated 3 years ago
- cy3sbml: SBML for Cytoscape 3☆13Updated 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…☆23Updated 6 months ago
- Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.☆21Updated last month
- Benchmarking and metadata tracking for Python. Extensible, with distributed/cluster support.☆16Updated last month
- Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML☆27Updated last year
- Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.☆19Updated this week
- MetaWards disease metapopulation analysis and modelling software. Professional geographical SIR model with a flexible plugin architecture…☆13Updated 2 months ago
- Online material for the Perspective: "Julia for Biologists" presented at JuliaCon 2021: https://www.youtube.com/watch?v=gRj7E5kYG1I☆95Updated last year
- A framework to visualize the isoclines of matrix games and quantify uncertainty in structured populations (MATLAB, Java)☆9Updated 3 years ago
- Data-Driven Constraint-based analysis☆12Updated last year
- The mwtab package is a Python library that facilitates reading and writing files in mwTab format used by the Metabolomics Workbench for a…☆12Updated 2 months ago
- Huge-scale, high-performance flow cytometry clustering in Julia☆31Updated last year
- Build and deploy Singularity containers to GitHub releases, and pull with the singularity-hpc client☆16Updated 11 months ago
- A simplified python interface to COPASI.☆19Updated 3 weeks ago
- Modeling toolkit for biochemical simulation☆71Updated last week
- PyBioPAX: A python implementation of the BioPAX object model☆23Updated 4 months ago
- MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.☆10Updated 3 weeks ago
- For analysis of microbiome and microbial community data☆47Updated 8 months ago
- Analyzing RNA-Seq with approximate likelihood☆26Updated 3 years ago