SBML topic
SBML (the Systems Biology Markup Language) is an XML-based format for communicating and storing representations of biological processes. Its aim is to be a lingua franca for representing models in biology. SBML is suitable for models commonly found in research on a number of topics, including cell signaling pathways, metabolic pathways, biochemical reactions, gene regulation, and many others.
Benchmark-Models-PEtab
A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling
biosimulations
A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
PEtab
PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology
sbml-test-suite
The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML support provided in a software package.
pysces
The official PySCeS project source code repository.
CNApy
An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets,...
SBML.jl
Julia interface to the Systems Biology Markup Language (SBML) library
SBSCL
The Systems Biology Simulation Core Library (SBSCL) provides an efficient and exhaustive Java implementation of methods to interpret the content of models encoded in the Systems Biology Markup Languag...
pyvipr
Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML
ModelPolisher
ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.