• PEtab

  • Referenced in 4 articles [sw36544]
  • PEtab - interoperable specification of parameter estimation problems in systems biology. Reproducibility and reusability ... problems in systems biology. Here, we introduce PEtab, a format which facilitates the specification ... parameters to be estimated. We already implemented PEtab support into eight well-established model simulation ... library for validation and modification of a PEtab problem and currently 20 example parameter estimation...
  • SBML2Julia

  • Referenced in 1 article [sw36528]
  • problems specified in SBML and TSV files (PEtab format) into Julia for Mathematical Programming (JuMP...
  • yaml2sbml

  • Referenced in 1 article [sw38702]
  • into SBML for ODE simulation and into PEtab for parameter fitting. yaml2sbml offers: a translator...
  • COPASI

  • Referenced in 71 articles [sw12253]
  • COPASI: biochemical network simulator. COPASI is a software...
  • libSBML

  • Referenced in 13 articles [sw12937]
  • libSBML: An API library for SBML. Summary: LibSBML...
  • Python

  • Referenced in 2164 articles [sw14460]
  • Python is a widely used high-level, general...
  • Data2Dynamics

  • Referenced in 12 articles [sw25272]
  • Data2Dynamics: a modeling environment tailored to parameter estimation...
  • MOCCASIN

  • Referenced in 2 articles [sw34252]
  • MOCCASIN stands for ”Model ODE Converter for Creating...
  • SimpleSBML

  • Referenced in 3 articles [sw34911]
  • SimpleSBML: A Python package for creating, editing, and...
  • Antimony

  • Referenced in 5 articles [sw34912]
  • Antimony: a modular model definition language. Summary: The...
  • ScrumPy

  • Referenced in 2 articles [sw38703]
  • ScrumPy: metabolic modelling with Python. ScrumPy is a...
  • AMICI

  • Referenced in 2 articles [sw38704]
  • AMICI: high-performance sensitivity analysis for large ordinary...