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Content Feed
Different units in the same Simbiology model
I would recommend against mixing mass-based units and mole-based units for species participating in the same reaction. In such c...
en dag ago | 1
Status 429 with message "Too Many Requests" in response to NCBI URL
As described here, you are seeing the error because NCBI limits the number of queries from a particular IP address to 3 per seco...
6 dagar ago | 0
eGPU set up for Simbiology calculation
No, SimBiology does not currently have any built-in support for GPU calculations. I suggest profiling to see what code is takin...
8 dagar ago | 0
| accepted
What toolboxes are useful to run with SimBiology?
I recommend simulating your model within SimBiology (that is, using SimBiology's ODE solvers rather than exporting your equation...
12 dagar ago | 0
| accepted
Apply Parallel Computing to Simbiology
Hi Jesse, The simplest fix would be to change 'ProgressPlot',true to 'ProgressPlot',false. The issue is that you're trying to c...
15 dagar ago | 1
| accepted
Command in Script for Data Comparison
Hi, Are you using the functions sbiofit or sbiofitmixed? If so, you will find RMSE, AIC, and BIC as properties on the first out...
ungefär en månad ago | 1
| accepted
Need help converting berkeley madonna code to matlab code
If you'd like to convert a Berkeley Madonna model to the equivalent SimBiology model, you can try using this converter from the ...
3 månader ago | 1
Steady State in insulindemo
Hi Pierre, Apologies for the long response, but answering your question acurately requires discussing a lot of details, at leas...
3 månader ago | 0
Insulindemo_Change of numerical values in some parameters are not reflected in the simulation
Hi Juliana, Yes, you can change these parameters. However, the values on the parameters themselves are replaced by any values s...
3 månader ago | 0
| accepted
How to get rid of "Integration Tolerance Not Met"?
If you simulate from the command line, you should see a warning that infinite or NaN (not-a-number) values occur during the simu...
4 månader ago | 0
value of Stomach Glu After Dosing_insulindemo
I believe you are referring to the value of 125 in the variant named "Type 2 diabetic", as shown for example on this page. I bel...
4 månader ago | 1
| accepted
Cannot parse function hints
When I do something similar in my installation of MATLAB version R2021a, I get a little popup that says "No completions found". ...
4 månader ago | 0
Nucleotides import- not from database
Based on the information you've provided, I would import the data directly from Excel as you currently have it formatted. You ca...
5 månader ago | 0
| accepted
How to fit an observable in a SimBiology model using sbiofitmixed function?
HI Budhaditya Chatterjee, This looks like a bug that someone else reported to me a few days ago. The bug is triggered whenever ...
5 månader ago | 0
| accepted
lsqnonlin multiple dataset optimisation
You can use lsqnonlin with or without SimBiology. If you want to do this without SimBiology, you need to write a function that t...
5 månader ago | 0
Events during the fitting in Simbiology
Yes, all active events will be used during simulations, including simulations performed while doing NLME estimation.
6 månader ago | 0
| accepted
SImbiology: access "Initial Conditions" (not InitialValues)
As you discovered, getequations is intended as a textual report and is not well suited for programmatic access to initial values...
6 månader ago | 0
In Online Matlab under App menu, Signal Analyzer not working?
The Signal Analyzer App is not supported with MATLAB Online. You will need to use the desktop version of MATLAB if you need acce...
6 månader ago | 2
Error in data fitting in simbiology
When you perform a fit in SimBiology, one of the first things that happens is the model is simulated using the initial parameter...
6 månader ago | 0
| accepted
When will sbmlimport support sbml level 3?
SimBiology already supports SBML level 3 version 1. That was introduced in R2016a. You can read more about what is supported her...
6 månader ago | 0
| accepted
Installing Supported Compliers on Ubuntu 20.01
You can use "apt" to install these compilers. Try googling "install gcc ubuntu" and "install jdk ubuntu" if you need more detail...
7 månader ago | 0
| accepted
Creating a cell growth model using SimBiology.
Hi, The capacity of a compartment can vary during the course of a simulation. To do this, you must set the Constant property to...
8 månader ago | 1
| accepted
Fit data with weight in Simbiology
You can use NaN to indicate a missing value in your data. Such points will be ignored during fitting. If you are getting an erro...
8 månader ago | 1
| accepted
Will Matlab work on ARM based MacBook stated to launch in the fall of 2020?
Please see this MATLAB Answers post for the latest news on running MATLAB on Apple Silicon: https://www.mathworks.com/matlabcent...
9 månader ago | 2
Will Matlab support future Apple computers based on their in house ARM silicon?
Please see this MATLAB Answers post for the latest news on running MATLAB on Apple Silicon: https://www.mathworks.com/matlabcent...
9 månader ago | 1
Solved
Eliminate Polysyllabics: Long live short words!
Given a string s1, return s2 in which all the words with more than one syllable have been removed. To make things simple, we ...
9 månader ago
Which module is best for modeling large cell populations?
As stated, your question is too general to answer with specific recommendations. SimBiology is certainly useful for certain kind...
9 månader ago | 0
Simbiology with matlab background
It's very hard to say what's going on without having reproduction steps. Can you share your model and the steps you used to simu...
ungefär ett år ago | 0
| accepted
Invalid Reaction Value error for SBML transfer from COPASI to Matlab
Hi Darke, This is a bug in how SimBiology imports reaction modifiers. The model is imported incorrectly if either the name of a...
ungefär ett år ago | 1
| accepted
AUC for Pharmacokinetic Study
The simplest way to calculate AUC in MATLAB using the trapezoidal rule is probably to use the function trapz. Within SimBiology,...
ungefär ett år ago | 1
| accepted
