Sequential feature selection and autoencoders for classification

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I have been reading the documentation about sequential feature selection reported HERE. What I would to do at first is to run the code example reported there, but instead of using the classification method shown there I would replace it with a novel network made up of an autoencoder and a softmax output layer (as described HERE) so that I could use it in place of
fun = @(XT,yT,Xt,yt)...
(sum(~strcmp(yt,classify(Xt,XT,yT,'quadratic'))));
In principle, function classify could be used for autoencoders as well, being derived objects in a OOP perspective. How could this issue be addressed?

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