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Abstract-Parasites live in a host and get its food from or at the expensive of that host. Cysts represent a form of resistance and spread of parasites. The manual diagnosis of microscopic stools images is time-consuming and depends on the human expert. In this paper, we propose an automatic recognition system that can be used to identify various intestinal parasite cysts from their microscopic digital images. We employ image pixel feature to train the probabilistic neural networks (PNN). Probabilistic neural networks are suitable for classification problems. The main novelty is the use of features vectors extracted directly from the image pixel. For this goal, microscopic images are previously segmented to separate the parasite image from the background. The extracted parasite is then resized to 12x12 image features vector. For dimensionality reduction, the principal component analysis basis projection has been used. 12x12 extracted features were orthogonalized into two principal components variables that consist the input vector of the PNN. The PNN is trained using 540 microscopic images of the parasite. The proposed approach was tested successfully on 540 samples of protozoan cysts obtained from 9 kinds of intestinal parasites.