sys-bio / roadrunner

Related projects ⓘ

Alternatives and complementary repositories for roadrunner

• matthiaskoenig / dfba
  Encoding Dynamic Flux Balance Analysis in SBML
  ☆11Updated 4 years ago
• sys-bio / tellurium
  Python Environment for Modeling and Simulating Biological Systems
  ☆109Updated 6 months ago
• sbmlteam / python-libsbml
  Standalone Python package containing libSBML with support for SBML Level 3 Core and accepted SBML Level 3 packages.
  ☆21Updated 3 weeks ago
• SBRG / MASSpy
  ☆22Updated last year
• matthiaskoenig / sbmlutils
  Python utilities for SBML
  ☆37Updated 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 (…
  ☆41Updated last month
• 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 8 months ago
• SBRG / cobrame
  A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
  ☆34Updated 5 years ago
• RuleWorld / bionetgen
  Rule-based modeling framework
  ☆60Updated last month
• copasi / COPASI
  COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.
  ☆94Updated this week
• LoLab-MSM / pyvipr
  Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML
  ☆27Updated last year
• copasi / basico
  A simplified python interface to COPASI.
  ☆19Updated last week
• cnapy-org / CNApy
  An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced feat…
  ☆46Updated last month
• opencobra / COBRA.tutorials
  Repository of tutorials for The COBRA Toolbox
  ☆18Updated 2 weeks ago
• lanl / PyBNF
  An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…
  ☆22Updated 11 months ago
• sys-bio / simplesbml
  Python package for building SBML models without needing to use libSBML.
  ☆10Updated 3 years ago
• matthiaskoenig / cy3sbml
  cy3sbml: SBML for Cytoscape 3
  ☆13Updated 2 years ago
• fumiomatsuda / mfapy
  A python toolbox for 13C metabolic flux analysis
  ☆19Updated 2 months ago
• EPFL-LCSB / skimpy
  Symbolic Kinetic Models with Python
  ☆30Updated 2 months ago
• pstjohn / dFBA
  Dynamic Flux Balance analysis in Python
  ☆11Updated 8 years ago
• draeger-lab / ModelPolisher
  ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.
  ☆23Updated 3 weeks ago
• SysBioInra / RBApy
  Python package for creating, calibrating and simulating RBA models
  ☆11Updated last year
• biosustain / Maud
  Enzyme models that take into account kinetics, allostery and thermodynamics
  ☆27Updated 2 months ago
• SBRG / bigg_models
  The BiGG Models website server
  ☆80Updated 5 years ago
• StochSS / StochKit
  StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.
  ☆16Updated 4 years ago
• alubbock / microbench
  Benchmarking and metadata tracking for Python. Extensible, with distributed/cluster support.
  ☆16Updated 3 months ago
• sbmlteam / moccasin
  MOCCASIN translates basic ODE-based MATLAB models of biological processes into SBML format.
  ☆11Updated 3 months ago
• klavinslab / coral
  Coral, a library and framework for specifying synthetic biology design processes.
  ☆33Updated last year
• pstjohn / d3flux
  D3.js based visualizations of cobrapy metabolic models
  ☆41Updated 4 years ago
• CompuCell3D / CompuCell3D
  CompuCell3D public source code repository
  ☆63Updated 2 weeks ago