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Extracting Histogram data for plot generation
You can export the samples you generated using Model Analyzer to an Excel file: Find the samples under your program results Dr...
ungefär ett år ago | 0
save parameters after estimates as a variant in simbiology app
You can save parameter estimates as a variant by right clicking on the results and selecting Create a Variant from Estimated Par...
ungefär ett år ago | 2
| accepted
Is there a way to set UseParallel to true directly on Simbiology Model Analyzer for performing fitting with global solvers (e.g., particleswarm)?
Hi - you can do so by clicking on the Parallel icon on the top left corner of the program tab on Model Analyzer. Please see the...
mer än ett år ago | 0
| accepted
Multiple Stages in SimBiology Model?
Hi Patrick, 1) You can use Events to implement such dicrete changes. Please see this page for details: https://www.mathworks.c...
nästan 2 år ago | 1
Can Simbiology simulate one-to-many scenarios?
You can set the stociometry of your reaction either on the Model Builder App or programmatically. On the app, you can simply mod...
nästan 2 år ago | 0
can I directly change the ODE?
You cannot edit ODEs directly but you can inspect them using getequations from the command-line or Show model equations option f...
nästan 2 år ago | 1
Drag a line to create a reaction
Hi Wenye, To connect species with a reaction, press and hold the Ctrl key (on Windows® and Linux®) or the Option key (on macOS...
ungefär 2 år ago | 2
simBiology exported model simulation output not in the same order as `InitialValues`
Hello, exported_model.InitialValues lists all of exported_model's editable objects which is by default everything (compartment...
ungefär 2 år ago | 1
| accepted
Space saving way to plot bar plot for sbiosobol results
Hi Jesse, You could modify properties of TiledChartLayout to save some space, such as TileSpacing. Below is an example. Oth...
mer än 2 år ago | 0
Is it possible to display initial assignments and/or parameters in SimBiology diagram?
That's right, starting R2020b initial assignments are not displayed on the diagram and only parameters that are on the left hand...
mer än 2 år ago | 0
| accepted
Question about available PK models for practicing purposes
Hi Christos, A couple of thoughts: SimBiolog has a PK library. You can pick a 1 or 2 comp model from there, populate the param...
mer än 2 år ago | 0
Visualize selected pathways in simbiology GUI
In R2022b (I understand from the release info that this is the version you're running), you can search both the Diagram and the ...
mer än 2 år ago | 0
My Matlab (version R2022b) does not include the SimBiology App by default in the App collection under the Computational Biology section
Hi, In MATLAB you can use Add-Ons Explorer to install SimBiology. Go to Home->Add-Ons->Get add-ons, seach for SimBiology and...
mer än 2 år ago | 1
How to build indirect response model?
Hi, If I understand your question correctly, your indirect response model is in derivative form as: dProtein/dt = kin - kout*(...
mer än 2 år ago | 0
How to plot individual concentration vs time plot by group?
If you have a column in your dataset with the dose info, you can use this column to slice the data using Visual Channels. Please...
mer än 2 år ago | 0
How to make simbiology plot concetratin?
SimBiology returns simulation results of quantities (for example, species) in the user specified units. So if a species is in un...
mer än 2 år ago | 0
How do I convert a BAM file to SAM and GFF file to GTF for use in featurecount?
The featurecount function now accepts BAM files. GFF is not supported by featurecount, but the cuffgffread function can convert ...
nästan 3 år ago | 0
Interested in changing line properties of sbioplot
Hello, These can be set using line object handles, for example: ax = sbioplot(sbiosimulate(m1,d)); h = findobj(ax, 'Type', '...
ungefär 3 år ago | 2
| accepted
simulations of 100 samples (1 time 100 sample size) varied by Height or Weight and export data to excel file using simbiology matlab version 2022a
Hello. You could run a Scan Program to simulate with variations in weight and height. Please see this short video on how to do t...
ungefär 3 år ago | 1
Submitted
SimBiology model for PK/PD of antibacterial drugs
SimBiology model for PK/PD of antibacterial drugs
ungefär 3 år ago | 3 downloads |
Submitted
SimBiology model for Target-Mediated Drug Disposition (TMDD)
SimBiology implementation of the Target-Mediated Drug Disposition (TMDD) model
ungefär 3 år ago | 5 downloads |
Is there any way to export a simbiology model diagram in high resolution?
With R2021b, you can export the diagram as a tiff, png, jpeg, etc. by selecting Export->Export Diagram on Model Builder Home tab...
mer än 3 år ago | 0
| accepted
Why do I receive an 'Invalid input argument of type 'double'. Input must be a structure or a Java or COM object' error while loading data in a simbiology fit program?
Are you running R2021b and is your dataset has only one group? If so, this is likely a known bug with the app that affects datas...
mer än 3 år ago | 0
| accepted
How can I change the compartment, species and parameter through variants?
Hi, if you choose Initial Coniditions on the home tab of Model Builder, you will see that the values on the Initial Contitions c...
mer än 3 år ago | 1
| accepted
How can i do "code capture" in Simbiology of MATLAB 2020b version?
Hi, The "code capture" tool is not available in the current version of SimBiolgy. However, you can see the MATLAB code behind ...
nästan 4 år ago | 1
Slider in Simbiology Change Range
Hi Damir, In R2021a you can just type the upper and lower range in the area below the slider and click enter. Please see belo...
ungefär 4 år ago | 0
| accepted
How can I optimize parallel simulations of a SimBiology model?
Hi Colton, Yes, using SimFunction would be better as it offers easy and efficient parallelization and avoids repeated compilati...
mer än 4 år ago | 1
| accepted
Where is "RUN GROUP SIMULATION" in Simbiology Version 5.10 (R2020a)?
Hi Isabel, group simulation is no longer available starting 19b. Instead, you can create a scan program where you can input Dose...
mer än 4 år ago | 0
| accepted
Submitted
SimBiology COVID-19 SEIR Model Examples
SimBiology implementations of COVID-19 SEIR models from literature
nästan 5 år ago | 2 downloads |
Can I generate MATLAB code for a PK simulation built with SimBiology APP?
Hi Wei, If you right-click on the program on Model Analyzer and choose View program code, this will open the code for the pro...
nästan 5 år ago | 2
