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I want to implement an autoencoder with theano to express each article. When I made it following the tutorial of UFLDL. I found that it's hard to get gradient descent(I use LBFGS). I want to know whether it is due to the sparsity of the BOW input?

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Typically people train autoencoders on the sentence level and not for entire articles. That may be why you are having trouble training your model.

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