Community Profile

photo

Sietse Braakman


MathWorks

20 total contributions since 2017

Contact

Sietse Braakman's Badges

  • First Review
  • 6 Month Streak
  • Knowledgeable Level 2
  • Revival Level 1
  • First Answer

View details...

Contributions in
View by

Answered
How do I complete a Visual Predictive Check in Simbiology PopPK sbionlmefitsa
Hi Andy, Thank you for the feedback. To support my suggested approach with a more concrete example, we have written a function ...

9 days ago | 0

Answered
Mass balance issues with PBPK model in Simbiology
Hi Andrew, This might be an integration imprecision in the solver due to tolerances that are not strict enough. Have you trie...

15 days ago | 0

Answered
Is there a listing of functions (such as 'trapz') to use in SimBiology explorer?
Hi Andrew, You could use the following: Cmax: max(Central.Drug_Central) Tmax: time(Central.Drug_Central == max(Central.Drug...

22 days ago | 0

| accepted

Answered
How do I complete a Visual Predictive Check in Simbiology PopPK sbionlmefitsa
Hi Andy, Please excuse the late reply. Have you looked into using sbiosampleparameters? This function allows you to sample your...

25 days ago | 0

| accepted

Answered
Specifying different variants for different groups in 'sbiofit'
Hi Abed, We get this question quite regularly - the best way to do this currently is by using dosing. What you have to do: In ...

3 months ago | 0

| accepted

Answered
How to change model parameter value in exported simbiology model?
Hi Rajeev, To clarify - there are two ways I can interpret your question primarily because 'exporting' a SimBiology model can m...

3 months ago | 1

| accepted

Answered
Log likelihood is initially high in FOCE but as the iteration proceeds to greater than 3500 the log likelihood reduces and finally ends with error that maximum iteration has been achieved.
Dear Praveen, Generally, parameter estimation is a complicated topic that inherently has a lot of ambiguity. This makes it dif...

4 months ago | 1

| accepted

Answered
Does SimBiology provide a PK model with an infusion turned on and off during simulation?
You can dose your model by adding a dose object (e.g. a Repeat Dose) to the species you want to dose. In the image below, the sp...

5 months ago | 0

Answered
Data Extraction from SimBiology Simulations
It looks like you are on Mac OS - the export to Excel uses the function xlswrite, which unfortunately only works on Windows. h...

5 months ago | 0

Answered
Data Extraction from SimBiology Simulations
Hi Andrew, Assuming you are using the SimBiology app, you can do this by right-clicking on the simulation plot and selecting 'E...

5 months ago | 1

| accepted

Answered
TissuePartition Function Inclusion into SimBiology PBPK
Hi Andrew, Are you trying to pull out the values of the partition coefficients or the model equations? In general, SimBiology ...

5 months ago | 1

| accepted

Answered
Issues fitting ka parameter
Hi Brett, There are three ways you can approach this: by assuming that the dose is reduced by a factor F, such as Peter sugges...

6 months ago | 0

| accepted

Answered
reproducing sensitivities from MATLAB GUI
A typical use case for this question is when calculating a sensitivity on species C, where species C is a linear combination of ...

6 months ago | 0

Answered
Is there an object associated with simulate task in the simbiology desktop that contains the name of the task?
Hi Jim, These are good questions. Currently, there is no way to access the task name from the desktop, or from MATLAB. One so...

8 months ago | 0

| accepted

Answered
How do I calculate a confidence interval for a simulation from a PK model?
Since R2017b, SimBiology has two functions to calculate confidence intervals. At the time this question was asked, these functio...

8 months ago | 1

| accepted

Answered
How to assign to a SimBiology model a parameter value (known and constant) changing for each data in the dataset for a non-linear mixed effect estimation?
Hi Anne, As of 2018b, there is no easier way to achieve this, other than the method described by Arthur above. We are aware tha...

9 months ago | 0

Answered
Infinite StandardError with sbiofit
Fitting problems like the one Hussein describes tend to be difficult to troubleshoot online, especially when the model/data cann...

11 months ago | 0

| accepted

Answered
Simbiology installed but not recognized in App
The gPKPDSim app requires the SimBiology toolbox to run as it uses SimBiology models and associated functions for e.g. for simul...

12 months ago | 1

| accepted

Answered
App to convert Simbiology models to .sbproj files
Hi Ivan, Here are my thoughts: * If your models are "SimBiology.Model"-objects (you can hoover over the model in your work...

2 years ago | 0

Answered
App to convert Simbiology models to .sbproj files
Hi Ivan, I am not sure I fully understand your situation. If your SimBiology models are not already an .sbproj, what format a...

2 years ago | 0