Well... you mention the word "GUI" to describe MATLAB, but the only way I can think of doing would be to try to call MATLAB in Batch mode and pass the parameters via the command line arguments. If you can do what you want using MATLAB Batch mode, then you can just implement it using the System Exec VI. However I am quite unfamiliar with MATLAB so this is only speculation. I am just spitballing ideas.
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