Suppose one is faced with the challenge of tissue segmentation in MR images, without annotators at their center to provide labeled training data. One option is to go to another medical center for a trained classifier. Sadly, tissue classifiers do not generalize well across centers due to voxel intensity shifts caused by center-specific acquisition protocols. However, certain aspects of segmentations, such as spatial smoothness, remain relatively consistent and can be learned separately. Here we present a smoothness prior that is fit to segmentations produced at another medical center. This informative prior is presented to an unsupervised Bayesian model. The model clusters the voxel intensities, such that it produces segmentations that are similarly smooth to those of the other medical center. In addition, the unsupervised Bayesian model is extended to a semi-supervised variant, which needs no visual interpretation of clusters into tissues.
Hidden Markov Random Field (MRF) models are a form of Bayesian models for image segmentation. They pose a hidden state for each voxel that accounts for some intrinsic latent structure of the image @cite_13 . For tissue segmentation, the latent state is assumed to be the tissue of the voxel, while the observed voxel intensity value is a sample from a probabilistic observation model. The observation model specifies the causal relations between the latent image and the observed image @cite_19 @cite_12 . Such assumptions are not unreasonable for the case of MR imaging, where T1 relaxation times depend on the tissue of the voxel.
@cite_19 @cite_13 @cite_12
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This paper presents a Bayesian framework for neonatal brain-tissue segmentation in clinical magnetic resonance (MR) images. This is a challenging task because of the low contrast-to-noise ratio and large variance in both tissue intensities and brain structures, as well as imaging artifacts and partial-volume effects in clinical neonatal scanning. We propose to incorporate a spatially adaptive likelihood model using a data-driven nonparametric statistical technique. The method initially learns an intensity-based prior, relying on the empirical Markov statistics from training data, using fuzzy nonlinear support vector machines (SVM). In an iterative scheme, the models adapt to spatial variations of image intensities via nonparametric density estimation. The method is effective even in the absence of anatomical atlas priors. The implementation, however, can naturally incorporate probabilistic atlas priors and Markov-smoothness priors to impose additional regularity on segmentation. The maximum-a-posteriori (MAP) segmentation is obtained within a graph-cut framework. Cross validation on clinical neonatal brain-MR images demonstrates the efficacy of the proposed method, both qualitatively and quantitatively. The finite mixture (FM) model is the most commonly used model for statistical segmentation of brain magnetic resonance (MR) images because of its simple mathematical form and the piecewise constant nature of ideal brain MR images. However, being a histogram-based model, the FM has an intrinsic limitation-no spatial information is taken into account. This causes the FM model to work only on well-defined images with low levels of noise; unfortunately, this is often not the the case due to artifacts such as partial volume effect and bias field distortion. Under these conditions, FM model-based methods produce unreliable results. Here, the authors propose a novel hidden Markov random field (HMRF) model, which is a stochastic process generated by a MRF whose state sequence cannot be observed directly but which can be indirectly estimated through observations. Mathematically, it can be shown that the FM model is a degenerate version of the HMRF model. The advantage of the HMRF model derives from the way in which the spatial information is encoded through the mutual influences of neighboring sites. Although MRF modeling has been employed in MR image segmentation by other researchers, most reported methods are limited to using MRF as a general prior in an FM model-based approach. To fit the HMRF model, an EM algorithm is used. The authors show that by incorporating both the HMRF model and the EM algorithm into a HMRF-EM framework, an accurate and robust segmentation can be achieved. More importantly, the HMRF-EM framework can easily be combined with other techniques. As an example, the authors show how the bias field correction algorithm of Guillemaud and Brady (1997) can be incorporated into this framework to achieve a three-dimensional fully automated approach for brain MR image segmentation. Probabilistic models of natural images are usually evaluated by measuring performance on rather indirect tasks, such as denoising and inpainting. A more direct way to evaluate a generative model is to draw samples from it and to check whether statistical properties of the samples match the statistics of natural images. This method is seldom used with high-resolution images, because current models produce samples that are very different from natural images, as assessed by even simple visual inspection. We investigate the reasons for this failure and we show that by augmenting existing models so that there are two sets of latent variables, one set modelling pixel intensities and the other set modelling image-specific pixel covariances, we are able to generate high-resolution images that look much more realistic than before. The overall model can be interpreted as a gated MRF where both pair-wise dependencies and mean intensities of pixels are modulated by the states of latent variables. Finally, we confirm that if we disallow weight-sharing between receptive fields that overlap each other, the gated MRF learns more efficient internal representations, as demonstrated in several recognition tasks. Markov random field (MRF) models are a popular tool for vision and image processing. Gaussian MRF models are particularly convenient to work with because they can be implemented using matrix and linear algebra routines. However, recent research has focused on on discrete-valued and non-convex MRF models because Gaussian models tend to over-smooth images and blur edges. In this paper, we show how to train a Gaussian conditional random field (GCRF) model that overcomes this weakness and can outperform the non-convex field of experts model on the task of denoising images. A key advantage of the GCRF model is that the parameters of the model can be optimized efficiently on relatively large images. The competitive performance of the GCRF model and the ease of optimizing its parameters make the GCRF model an attractive option for vision and image processing applications.