Variants in SimBiology debugger

Hello,

Is it possible to apply variants when running the SimBiology debugger?

Thank you,

Abed

Answer 1

[Florian Augustin]

Hi Abed,

Yes, you can specify configuration set, doses and variants when starting the debugger. This is currently undocumented, but below is a full description of possible input arguments and how to start the debugger.

Best,

Florian

% startSimBiologyDebugger Open Model Debugger for SimBiology.
%
%   startSimBiologyDebugger(modelObj) starts the Model Debugger app to
%     debug the SimBiology model object modelObj. The model active
%     configset, active variants, and active doses are used. Active
%     variant values supersede the corresponding model values. Active doses
%     define additions that are made to species amounts or parameter
%     values.
%
%    startSimBiologyDebugger(modelObj, configSetObj) uses the SimBiology 
%     configuration set configSetObj for debugging. The input 
%     configSetObj is a scalar SimBiology.ConfigSet object.
%
%    startSimBiologyDebugger(modelObj, variantObj) applies the
%     variant object or vector of variant objects variantObjs to the model
%     before debugging.
%
%    startSimBiologyDebugger(modelObj, doseObjs) uses the dose object or
%     vector of dose objects doseObjs during debugging.
%
%    startSimBiologyDebugger(modelObj, configSetObj, doseOrVariantObjs)
%     debugs modelObj using the configuration set configSetObj and variants
%     or doses doseOrVariantObjs. Specify [] as the third argument when you
%     want to explicitly exclude any variant objects from debugging.
%
%    startSimBiologyDebugger(modelObj, configSetObj, variantObjs, doseObjs) 
%     debugs modelObj using the configuration set configSetObj, variants 
%     variantsObjs, and doses doseObjs.
%
%
%    Example:
%
%       % Create a SimBiology model from an SBML file.
%       m = sbmlimport('lotka');
%
%       % Open the Debugger app to troubleshoot the model.
%       startSimBiologyDebugger(m);

[Abed Alnaif]

Thank you, Florian!