SimBiology

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*New Features* R2019b introduces the new SimBiology Model Analyzer which replaces Task Editor enabling you to do a lot more within the app. For a detailed look into enhancements with Model Analyzer, we created a few short videos. Below is a list of the new features together with videos describing each feature. * *Programs*: Compose SimBiology analysis programs from built-in analysis steps. _Video_: <https://www.mathworks.com/videos/simulating-a-model-in-simbiology-117245.html Simulating a model using SimBiology Model Analyzer> * *Scenarios*: Generate Samples to perform Monte Carlo simulations using various modeling and dosing conditions. _Video_: <https://www.mathworks.com/videos/simbiology-tutorials-for-qsp-pbpk-and-pk-pd-modeling-and-analysis-generating-simulation-scenarios-by-sampling-model-quantities-1577166565216.html Generating Simulation Scenarios by Sampling Model Quantities> _Video_: <https://www.mathworks.com/videos/simbiology-tutorials-for-qsp-pbpk-and-pk-pd-modeling-and-analysis-sampling-parameters-from-covariate-models-in-simbiology-1577166704755.html Sampling Parameters from Covariate Models> * *Plotting and Datasheets*: Plot multi-dimensional data slicing by categories such as response or scenarios. Visualize and manipulate raw external and analysis data using datasheets. _Video_: <https://www.mathworks.com/videos/simbiology-tutorials-for-qsp-pbpk-and-pk-pd-modeling-and-analysis-stratifying-data-for-visualization-in-simbiology-1576844776342.html Stratifying Data for Visualization in SimBiology> *Compatibility considerations with earlier versions of SimBiology* There are a few things that one needs to be aware of if planning to use R2019b with a SimBiology project created in older versions. If you load a project created pre-R2019b, the existing tasks are converted to equivalent programs. However, keep in mind the following for the current version of SimBiology Model Analyzer: * Live Plots functionality of the Task Editor is not supported. If Live Plots in the Task Editor is turned on and shows a time plot of simulation results, then an equivalent time plot is added on import to the SimBiology Model Analyzer app with the main difference being that the time plot is updated and displayed after the program finishes (not while it is running). * Previously available Calculate Conserved Cycles, Search Model(s), and Generate Report tasks are not supported. * Any Group Simulation task is converted to a Scan program. * Fit Data program does not support nlinfit as the estimation method. However, the command-line function sbiofit still supports nlinfit. * To help with the transition to R2019b, when you open an existing project created in R2019a or earlier, the app creates a backup of the original file. The backup file has the release information suffixed to its name, filename_release.sbproj. For example, if you open an R2019a project named foo.sbproj in the app, the app creates a backup file called foo_R2019a.sbproj. * Also, when you open and save a project, the app creates a backup file of the version prior to the saved version of the project. The backup file has the .bak extension (for example, foo.sbproj.bak). See the complete list of general behavior change, compatibility considerations, and new features in the <https://www.mathworks.com/help/simbio/release-notes.html#mw_56b28e45-3ec8-4c22-80b2-d7faefd2b8ba release notes>. What's new with SimBiology Model Analyzer App simbiology model analyzer app scenarios covariate models sampling parameters

Hello, I'm having trouble simultaneously simulating multiple parameterizations of a model using simfunctions and scenarios, in R2019b. Please refer to the example below. Is there a proper way of doing this? I think I could get around this error be inputting all of the parameterizations when calling 'createSimFunction', but this is not possible in my application because I do not know a priori how many different parameterizations I plan to simulate. Thank you, Abed % The following works: sbioloadproject('insulindemo','m1'); variants = getvariant(m1); singleMeal = sbioselect(m1,'Name','Single Meal'); sObj = SimBiology.Scenarios; add(sObj,'cartesian','variants',variants); add(sObj,'cartesian','dose',singleMeal); sObj.verify(m1); f = createSimFunction(m1,sObj,{'[Plasma Glu Conc]','[Plasma Ins Conc]'},[]); sd = f(sObj,24); % But the following triggers an error: nIndivs = 2; % number of parameterizations (let's pretend each individual has different parameterizations -- although in this example they have the same parameterization). for iEntry = 1:sObj.NumberOfEntries sObj = sObj.updateEntry(iEntry,'Content',repmat(sObj.getEntry(iEntry).Content,nIndivs,1)); end sObj.verify(m1); sd2 = f(sObj,24);