Difference between revisions of "Parameter fitting (analysis)"

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Revision as of 19:00, 13 February 2017

Analysis title
DAE-models-Parameter-fitting-icon.png Parameter fitting
Provider
Institute of Systems Biology
Class
ParameterFitting
Plugin
biouml.plugins.optimization (Optimization plug-in)

Parameters:

  • Input diagram – Input diagram
  • Experiment table – Experiment table
  • Algorithm – Algorithm
    • type – type
    • Iterations number – Iterations number
    • Survival size – Survival size
  • Parameters group – Parameters group
    • Parameters – Parameters
  • Result – Result
  • Simulation engine – Simulation engine
    • Engine type – Engine type.
    • Engine options – Engine options.
      • Initial time – Initial time.
      • Completion time – Completion time.
      • Time increment – Time increment.
      • Simulator name – Simulator name.
      • Simulator options – Simulator options.
        • Absolute tolerance – Absolute tolerance.
        • Relative tolerance – Relative tolerance.
        • Statistics mode – Statistics mode.
        • Integration method – Integration method (ADAMS or BDF)
        • Inner linear solver type – Inner linear solver type
        • Jacobian approximation type – Jacobian approximation type
        • Steps limit – Limitation for solver steps count
        • Minimum time step – Minimum time step.
        • Maximum time step inverted – 1 / maximum time step.
        • Mu – Upper bandwidth of Banded Jacobian
        • Ml – Lower bandwidth of Banded Jacobian
        • Detect incorrect numbers (NaNs and Infs – If true then simulation will end when NaN or Infinity encountered
      • Code generation type – Type of code generation: if auto then BioUML will try to choose by itself.
      • Algebraic solver name – Name of algebraic solver which will be used
      • Algebraic Solver parameters – Parameters of algebraic solver which will be used
        • Maximum iterations – Maximum iterations
        • Function tolerance – Function tolerance
        • Minimal gradient tolerance – Minimal gradient tolerance
        • Points tolerance – Points tolerance
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