Filtering is a key step in digital image processing and analysis. It is mainly used for amplification or attenuation of some frequencies depending on the nature of the application. Filtering can either be performed in the spatial domain or in a transformed domain. The selection of the filtering method, filtering domain, and the filter parameters are often driven by the properties of the underlying image. This thesis presents three different kinds of biomedical image filtering applications, where the filter parameters are automatically determined from the underlying images. Filtering can be used for image enhancement. We present a robust image dependent filtering method for intensity inhomogeneity correction of biomedical images. In the presented filtering method, the filter parameters are automatically determined from the grey-weighted distance transform of the magnitude spectrum. An evaluation shows that the filter provides an accurate estimate of intensity inhomogeneity. Filtering can also be used for analysis. The thesis presents a filtering method for heart localization and robust signal detection from video recordings of rat embryos. It presents a strategy to decouple motion artifacts produced by the non-rigid embryonic boundary from the heart. The method also filters out noise and the trend term with the help of empirical mode decomposition. Again, all the filter parameters are determined automatically based on the underlying signal. Transforming the geometry of one image to fit that of another one, so called image registration, can be seen as a filtering operation of the image geometry. To assess the progression of eye disorder, registration between temporal images is often required to determine the movement and development of the blood vessels in the eye. We present a robust method for retinal image registration. The method is based on particle swarm optimization, where the swarm searches for optimal registration parameters based on the direction of its cognitive and social components. An evaluation of the proposed method shows that the method is less susceptible to becoming trapped in local minima than previous methods. With these thesis contributions, we have augmented the filter toolbox for image analysis with methods that adjust to the data at hand.

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La segmentation d'image constitue une étape importante dans le traitement d'image et de nombreuses questions restent ouvertes. Il a été montré récemment, dans le cas d'une segmentation à deux régions homogènes, que l'utilisation de contours actifs polygonaux fondés sur la minimisation d'un critère issu de la théorie de l'information permet d'aboutir à un algorithme ultra-rapide qui ne nécessite ni paramètre à régler dans le critère d'optimisation, ni connaissance a priori sur les fluctuations des niveaux de gris. Cette technique de segmentation rapide et non supervisée devient alors un outil élémentaire de traitement.L'objectif de cette thèse est de montrer les apports de cette brique élémentaire pour la conception de nouvelles techniques de segmentation plus complexes, permettant de dépasser un certain nombre de limites et en particulier :- d'être robuste à la présence dans les images de fortes inhomogénéités ;- de segmenter des objets non connexes par contour actif polygonal sans complexifier les stratégies d'optimisation ;- de segmenter des images multi-régions tout en estimant de façon non supervisée le nombre de régions homogènes présentes dans l'image.Nous avons pu aboutir à des techniques de segmentation non supervisées fondées sur l'optimisation de critères sans paramètre à régler et ne nécessitant aucune information sur le type de bruit présent dans l'image. De plus, nous avons montré qu'il était possible de concevoir des algorithmes basés sur l'utilisation de cette brique élémentaire, permettant d'aboutir à des techniques de segmentation rapides et dont la complexité de réalisation est faible dès lors que l'on possède une telle brique élémentaire. / Image segmentation is an important step in many image processing systems and many problems remain unsolved. It has recently been shown that when the image is composed of two homogeneous regions, polygonal active contour techniques based on the minimization of a criterion derived from information theory allow achieving an ultra-fast algorithm which requires neither parameter to tune in the optimized criterion, nor a priori knowledge on the gray level fluctuations. This algorithm can then be used as a fast and unsupervised processing module. The objective of this thesis is therefore to show how this ultra-fast and unsupervised algorithm can be used as a module in the conception of more complex segmentation techniques, allowing to overcome several limits and particularly:- to be robust to the presence of strong inhomogeneity in the image which is often inherent in the acquisition process, such as non-uniform illumination, attenuation, etc.;- to be able to segment disconnected objects by polygonal active contour without complicating the optimization strategy;- to segment multi-region images while estimating in an unsupervised way the number of homogeneous regions in the image.For each of these three problems, unsupervised segmentation techniques based on the optimization of Minimum Description Length criteria have been obtained, which do not require the tuning of parameter by user or a priori information on the kind of noise in the image. Moreover, it has been shown that fast segmentation techniques can be achieved using this segmentation module, while keeping reduced implementation complexity.

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