If you are trying to possibly handle this as a typical Machine Learning based classification problem, I would suggest the MATLAB's Classification Learner Toolbox, which provides an easy way to simply load the variables (features) from your workspace (which would be your features), and use it to predict the target (which in your case possibly might be a binary 0/1 for normal/disease segmentation, or if you are classifying multiple diseases, then it would be a multi-class classification problem in that sense).
You can even export the models afterwards to the workspace, save it, generation the MATLAB code for the trained model and much more. This is possibly the easiest way to handle classification tasks in MATLAB at present in my opinion, with minimal coding.
If you are planning a CART model then--after you get the model--the following (manual) procedure is used to prune the model to obtain maximum accuracy:
Did you do your homework on understanding various classification algorithms, their evaluation matrices, cross-validation approach to tune the parameters or to compare those methods, ensemble methods etc.?
I would say first get the basics, then learn the tool.