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Jeremy Huard

Last seen: Today 2014년부터 활동

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How to export model as equations
Hi @丁, do you only want to be able to see the ODEs or do you want to export them in a specific format? If you want to visualiz...

2일 전 | 0

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Simbiology program not working
Hi @Yeonsoo, I don't know what you mean when you say you downloaded 'amazon java script program'. But I assume you installed M...

3일 전 | 0

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How to randomly sample output times in Simbiology?
Hi @Wang, Since your ultimate goal is to run a GSA on the model output, I would recommend the following: Create parameter outT...

7일 전 | 0

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Cannot install libSBML in MATLAB
Hi @Elisa, did you download the binaries or just the src files? You need to download the archive libsbml-x.xx.x-matlab.binarie...

29일 전 | 0

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How to create user-defined unit in SimBiology?
Hi @日曜, I suspect you receive an error when executing the sbioaddtolibrary command because the sbiounit call does not include a...

29일 전 | 1

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How to set the number of sampling points when simulating using Simbiology APP
Hi @日曜, In the Model Analyzer App you can define the output times for all simulations of your model in its Simulation Settings ...

대략 1개월 전 | 1

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Export initial conditions of parameters/compartments/species into workspace
Dear @Justine, there is currently no built-in command line interface to get the initial conditions. However, you could simulat...

대략 2개월 전 | 0

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Simultaneously fitting two observed objects
Hi @Bohao, yes, you can accomplish this using fitProblem or the Model Analyzer App. All will need is a different column for eac...

3개월 전 | 1

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Unit problems of simbiology model
Dear Bohao, compartments are containers that are typically defined by their volume, so their unit will be e.g. liter, whereas s...

3개월 전 | 0

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How do I optimize my simulation and build in appropriate constraints on values?
Hi @Ian, I don't know the original mathematical model but based on the project you shared, I can recommend the following: I re...

4개월 전 | 0

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Payload release from ADC in Simbiology
Dear Yosuke, SimBiology supports setting stoichiometry coefficients in reactions. If you use the Model Builder App, you can f...

4개월 전 | 1

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Is there a way to combine plots generated in simbiology model analyzer into a single figure to export?
Hi @Rebeca Hannah Oliveira, starting R2023b you can do it programmatically after exporting the figures with: f1 = figure(1); %...

5개월 전 | 1

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How to simulate multiple doses and generate only one plot?
Hi @Lo, you can also scan over single dosing parameters such as its amount or even scan over a list of dose objects. There is ...

5개월 전 | 0

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How do I fit batch data to a simbiology model?
Hi, you will need first to assign a unique ID to every experiment. It looks like T7 is fixed during every experiment, is this c...

5개월 전 | 0

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can simbiology estimate dosage ?
Hi @Lo, yes, absolutely. I see two possibilities: if dosage consists of a single IV bolus at time=0, you can simply estimate ...

6개월 전 | 0

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Questions Regarding Sensitivity Analysis for Simbiology (Equation, Value Range)
Hi @Kendric Aaron, I will assume that your question relates to Local Sensitivity Analysis. But please let me know if this is no...

6개월 전 | 0

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Simulation error in Simbiology
Hi @Day, can you please share the project file you are using? Assuming you are using the tumor_growth_fitPKPD_completed.sbproj...

9개월 전 | 0

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Simbiology program code gave different results from my custom code
Hi @Jesse Chao, the issue comes from the dose template. In the first version your taget is Drug_Central (corresponding to IV bo...

9개월 전 | 1

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Simbiology program code gave different results from my custom code
Hi @Jesse Chao, this is difficult to debug without the actual model and data. Would you be able to share them? That said, I n...

9개월 전 | 0

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Equilibrate during parameter estimation
Hi @Anu, running sbiosteadystate before each simulation in a fit is not supported. That said, I see two options: If your case...

9개월 전 | 0

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error in running a SMBL file with SimBiology
Hi @Youngjae You, the piecewise.m file will need to be either in the Current folder or anywhere on your MATLAB Path for SimBiol...

10개월 전 | 1

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Can't remove a custom-made kinetic law using sbioremovefromlibrary
Hi, the easiest way to manage the user-defined library might be from within the Model Builder app: That said, you can still...

10개월 전 | 0

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Duplicate model within a project
Hi Natalia, the 'Duplicate model' option in the conctext menu of the project view is indeed not yet available in R2020b. Howev...

10개월 전 | 0

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Using simFunction Object in Simbiology when my stoichiometry depends on a model parameter
Hi Mehdi, the stoichiometry of reactions cannot be parametrized unfortunately. But instead of using reactions you can use rate...

11개월 전 | 0

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How to define observables units in simbiology Model Builder?
Hi Rebeca, you can define their units in the property editor (far-right panel of Model Builder) once you click on the observabl...

11개월 전 | 1

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How to configure SimBiology parameter estimation settings so that two parameters from the same model are actually one and the same?
Hi, the recommendation is to use model-scoped parameters instead of reaction-scoped parameters. Now, let me explain what this...

대략 1년 전 | 1

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How to read multiple .spc files
I would suggest to look at fileDatastore with @tgspcread as ReadFcn argument. You can then : either read all data at once with...

대략 1년 전 | 0

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problem using sortcols()
Even though there is no sortcols function for double matrices, you could transpose A and use the sortrows function before transp...

대략 1년 전 | 0

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Tracking max value during simulation
Hi Abed, the easiest way to keep track of the max of a species during a simulation might be to use an external function (see at...

대략 1년 전 | 0

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Converting from hours to seconds on Simbiology
Hi Rebeca, plots in SimBiology Model Analyzer will use the time unit specified in the program's simulation stop time. So, if y...

대략 1년 전 | 0

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