How to drive model in simbiology from values on data file?

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Camila Almeida 2015-7-23

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评论： Ingrid Tigges 2015-7-27

Hi,

I wanted to simulate a PD model but with a static PK given by a data file that I input into the model. Is that possible? I just have no clue of how to do it.

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Ingrid Tigges 2015-7-23

What do you mean with static pharmacokinetics? Can you elaborate a bit more how your model looks like?

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Answer 1

Ingrid Tigges 2015-7-24

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Do you want a kind of lookup table for your data? If yes you can do it as follows:

1) Create a repeated rule that calls an external function which loads your data file at t=0

2) Store the data in a persistent variable

The external function could look like as follows

 function y = AssignmentRule_function(time)
persistent data
 %%Variables to customize the behavior
numStates = 4; % The number of states that are saved in the MAT file
stateIndex = 3; % The index of the state you will interpolate
matFileName = 'unnamed.mat'; % Name of the MAT file
 %%Ensure data is compatible with code generation
if isempty(data)
data = struct('t', [0;10], 'x', zeros(2,numStates));
end
% Time dimension varies; num states is fixed
coder.varsize('data(:).t');
coder.varsize('data(:).x', [], [true false]);
 %%Initialize the data when time == 0
 if time == 0
 data = load(matFileName, 't', 'x');
 end
 %%Interpolate the data
y = interp1(data.t, data.x(:,stateIndex), time, 'pchip');
end

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Camila Almeida 2015-7-27

Hi, yes I would like for the model to look at the table in order to simulate the PD. Is there any chance we can do this using the nice user interface? I have tried creating a dose (right clicking on column from data file), but that doesn't seem to work... thought of using a variant and declaring the variable I want to read from the table as a parameter, but it doesn't seem you can pull the data from table using that. I also thought of using a covariate but couldn't find any help in doing that, it doesn't seem very straightforward.

Thanks

Ingrid Tigges 2015-7-27

Hi Camila,

Based on the information you provided, you will have to write your own function looking like the one in my answer. This bit cannot be done in the SimBiology Desktop itself.

If you would like to see this kind of functionality to be part of the SimBiology Desktop, please contact technical support. The amount of customers requesting a certain feature has an impact on the prioritization of work of MathWorks development.

Ingrid

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