sys-bio / antimony

Related projects: ⓘ

• sbmlteam / moccasin
  MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.
  ☆10Updated 3 weeks ago
• RuleWorld / bionetgen
  Rule-based modeling framework
  ☆59Updated 2 months ago
• LoLab-MSM / pyvipr
  Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML
  ☆27Updated last year
• sbmlteam / python-libsbml
  Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.
  ☆21Updated last month
• matthiaskoenig / dfba
  Encoding Dynamic Flux Balance Analysis in SBML
  ☆11Updated 4 years ago
• sys-bio / roadrunner
  libRoadRunner: A high-performance SBML simulator
  ☆39Updated this week
• copasi / basico
  A simplified python interface to COPASI.
  ☆19Updated 3 weeks ago
• sbgn / libsbgn
  Libraries for the Systems Biology Graphical Notation (SBGN); Java and C++
  ☆15Updated 2 years ago
• raim / SBML_odeSolver
  a C library for symbolic and numerical analysis of a system of ordinary differential equations (ODEs) derived from a chemical reaction ne…
  ☆21Updated 6 years ago
• KarrLab / intro_to_wc_modeling
  Whole-cell modeling tutorials
  ☆16Updated 4 years ago
• msneddon / nfsim
  A general-purpose, stochastic, biochemical reaction simulator for large reaction networks
  ☆17Updated 3 months ago
• RuleWorld / BNGTutorial
  Models that demonstrate the syntax and functionality of BioNetGen language and simulation tools.
  ☆14Updated last year
• sbmlteam / 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 suppor…
  ☆23Updated 6 months ago
• StochSS / StochKit
  StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.
  ☆16Updated 4 years ago
• matthiaskoenig / sbmlutils
  Python utilities for SBML
  ☆36Updated last month
• matthiaskoenig / cy3sbml
  cy3sbml: SBML for Cytoscape 3
  ☆13Updated last year
• CiaranWelsh / pycotools3
  A Python toolbox for COPASI
  ☆13Updated 3 months ago
• SynBioDex / tyto
  Use ontology terms in your Python application
  ☆18Updated 6 months ago
• sys-bio / tellurium
  Python Environment for Modeling and Simulating Biological Systems
  ☆106Updated 4 months ago
• AnabelSMRuggiero / sbmltoodepy
  A tool for creating Python implementations of SBML models.
  ☆12Updated last year
• copasi / COPASI
  COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.
  ☆91Updated 3 weeks ago
• sbmlteam / libsbml
  LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (…
  ☆39Updated this week
• StochSS / GillesPy2
  Modeling toolkit for biochemical simulation
  ☆71Updated last week
• ModelSEED / Model-SEED-core
  The Model SEED is a tool for building, curating, and analyzing gonome-scale metabolic models. Visit the Model SEED homepage for installat…
  ☆19Updated 11 years ago
• lanl / PyBNF
  An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…
  ☆22Updated 9 months ago
• cellml / libcellml
  Repository for libCellML development.
  ☆16Updated last month
• christophfeinauer / PdbTool.jl
  pdbTool: An object-oriented Julia tool to parse PDB files and work with them
  ☆15Updated 3 years ago
• jakobandersen / mod
  ☆28Updated 2 months ago
• PySCeS / pysces
  The official PySCeS project source code repository.
  ☆34Updated last week
• SynBioDex / libSBOL
  C++ implementation of SBOL 2.3.2
  ☆15Updated 3 years ago