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100
Diffeomorphic Demons: Efficient Nonparametric Image Registration
, 2008
"... We propose an efficient nonparametric diffeomorphic image registration algorithm based on Thirion’s demons algorithm. In the first part of this paper, we show that Thirion’s demons algorithm can be seen as an optimization procedure on the entire space of displacement fields. We provide strong theor ..."
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Cited by 108 (13 self)
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We propose an efficient nonparametric diffeomorphic image registration algorithm based on Thirion’s demons algorithm. In the first part of this paper, we show that Thirion’s demons algorithm can be seen as an optimization procedure on the entire space of displacement fields. We provide strong theoretical roots to the different variants of Thirion’s demons algorithm. This analysis predicts a theoretical advantage for the symmetric forces variant of the demons algorithm. We show on controlled experiments that this advantage is confirmed in practice and yields a faster convergence. In the second part of this paper, we adapt the optimization procedure underlying the demons algorithm to a space of diffeomorphic transformations. In contrast to many diffeomorphic registration algorithms, our solution is computationally efficient since in practice it only replaces an addition of displacement fields by a few compositions. Our experiments show that in addition to being diffeomorphic, our algorithm provides results that are similar to the ones from the demons algorithm but with transformations that are much smoother and closer to the gold standard, available in controlled experiments, in terms of Jacobians.
Symmetric logdomain diffeomorphic registration: A demonsbased approach
 IMAG. COMPUT
, 2008
"... Modern morphometric studies use nonlinear image registration to compare anatomies and perform group analysis. Recently, logEuclidean approaches have contributed to promote the use of such computational anatomy tools by permitting simple computations of statistics on a rather large class of inverti ..."
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Cited by 76 (29 self)
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Modern morphometric studies use nonlinear image registration to compare anatomies and perform group analysis. Recently, logEuclidean approaches have contributed to promote the use of such computational anatomy tools by permitting simple computations of statistics on a rather large class of invertible spatial transformations. In this work, we propose a nonlinear registration algorithm perfectly fit for logEuclidean statistics on diffeomorphisms. Our algorithm works completely in the logdomain, i.e. it uses a stationary velocity field. This implies that we guarantee the invertibility of the deformation and have access to the true inverse transformation. This also means that our output can be directly used for logEuclidean statistics without relying on the heavy computation of the log of the spatial transformation. As it is often desirable, our algorithm is symmetric with respect to the order of the input images. Furthermore, we use an alternate optimization approach related to Thirion’s demons algorithm to provide a fast nonlinear registration algorithm. First results show that our algorithm outperforms both the demons algorithm and the recently proposed diffeomorphic demons algorithm in terms of accuracy of the transformation while remaining computationally efficient.
A Generative Model for Image Segmentation Based on Label Fusion
 IEEE TRANSACTIONS IN MEDICAL IMAGING
, 2010
"... We propose a nonparametric, probabilistic model for the automatic segmentation of medical images, given a training set of images and corresponding label maps. The resulting inference algorithms rely on pairwise registrations between the test image and individual training images. The training labels ..."
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Cited by 62 (5 self)
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We propose a nonparametric, probabilistic model for the automatic segmentation of medical images, given a training set of images and corresponding label maps. The resulting inference algorithms rely on pairwise registrations between the test image and individual training images. The training labels are then transferred to the test image and fused to compute the final segmentation of the test subject. Such label fusion methods have been shown to yield accurate segmentation, since the use of multiple registrations captures greater intersubject anatomical variability and improves robustness against occasional registration failures. To the best of our knowledge, this manuscript presents the first comprehensive probabilistic framework that rigorously motivates label fusion as a segmentation approach. The proposed framework allows us to compare different label fusion algorithms theoretically and practically. In particular, recent label fusion or multiatlas segmentation
Nonparametric Diffeomorphic Image Registration with Demons Algorithm
, 2007
"... We propose a nonparametric diffeomorphic image registration algorithm based on Thirion’s demons algorithm. The demons algorithm can be seen as an optimization procedure on the entire space of displacement fields. The main idea of our algorithm is to adapt this procedure to a space of diffeomorphi ..."
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Cited by 48 (9 self)
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We propose a nonparametric diffeomorphic image registration algorithm based on Thirion’s demons algorithm. The demons algorithm can be seen as an optimization procedure on the entire space of displacement fields. The main idea of our algorithm is to adapt this procedure to a space of diffeomorphic transformations. In contrast to many diffeomorphic registration algorithms, our solution is computationally efficient since in practice it only replaces an addition of free form deformations by a few compositions. Our experiments show that in addition to being diffeomorphic, our algorithm provides results that are similar to the ones from the demons algorithm but with transformations that are much smoother and closer to the true ones in terms of Jacobians.
Deformable medical image registration: A survey
 IEEE TRANSACTIONS ON MEDICAL IMAGING
, 2013
"... Deformable image registration is a fundamental task in medical image processing. Among its most important applications, one may cite: i) multimodality fusion, where information acquired by different imaging devices or protocols is fused to facilitate diagnosis and treatment planning; ii) longitudin ..."
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Cited by 35 (1 self)
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Deformable image registration is a fundamental task in medical image processing. Among its most important applications, one may cite: i) multimodality fusion, where information acquired by different imaging devices or protocols is fused to facilitate diagnosis and treatment planning; ii) longitudinal studies, where temporal structural or anatomical changes are investigated; and iii) population modeling and statistical atlases used to study normal anatomical variability. In this paper, we attempt to give an overview of deformable registration methods, putting emphasis on the most recent advances in the domain. Additional emphasis has been given to techniques applied to medical images. In order to study image registration methods in depth, their main components are identified and studied independently. The most recent techniques are presented in a systematic fashion. The contribution of this paper is to provide an extensive account of registration techniques in a systematic manner.
A computational framework for the statistical analysis of cardiac diffusion tensors: Application to a small database of canine hearts
 IEEE Transactions on Medical Imaging
, 2007
"... Abstract—We propose a unified computational framework to build a statistical atlas of the cardiac fiber architecture from diffusion tensor magnetic resonance images (DTMRIs). We apply this framework to a small database of nine ex vivo canine hearts. An average cardiac fiber architecture and a measu ..."
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Cited by 25 (17 self)
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Abstract—We propose a unified computational framework to build a statistical atlas of the cardiac fiber architecture from diffusion tensor magnetic resonance images (DTMRIs). We apply this framework to a small database of nine ex vivo canine hearts. An average cardiac fiber architecture and a measure of its variability are computed based on most recent advances in diffusion tensor statistics. This statistical analysis confirms the already established good stability of the fiber orientations and a higher variability of the laminar sheet orientations within a given species. The statistical comparison between the canine atlas and a standard human cardiac DTMRI shows a better stability of the fiber orientations than their laminar sheet orientations between the two species. The proposed computational framework can be applied to larger databases of cardiac DTMRIs from various species to better establish intra and interspecies statistics on the anatomical structure of cardiac fibers. This information will be useful to guide the adjustment of average fiber models onto specific patients from in vivo anatomical imaging modalities. Index Terms—Atlas, cardiac, diffusion tensor magnetic resonance imaging, DTI, DTMRI, fiber architecture, heart, laminar sheets, statistics. I.
DTREFinD: Diffusion Tensor Registration with Exact FiniteStrain Differential
 IEEE Transactions on Medical Imaging, In
, 2009
"... Abstract—In this paper, we propose the DTREFinD algorithm for the diffeomorphic nonlinear registration of diffusion tensor images. Unlike scalar images, deforming tensor images requires choosing both a reorientation strategy and an interpolation scheme. Current diffusion tensor registration algorit ..."
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Cited by 25 (9 self)
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Abstract—In this paper, we propose the DTREFinD algorithm for the diffeomorphic nonlinear registration of diffusion tensor images. Unlike scalar images, deforming tensor images requires choosing both a reorientation strategy and an interpolation scheme. Current diffusion tensor registration algorithms that use full tensor information face difficulties in computing the differential of the tensor reorientation strategy and consequently, these methods often approximate the gradient of the objective function. In the case of the finitestrain (FS) reorientation strategy, we borrow results from the pose estimation literature in computer vision to derive an analytical gradient of the registration objective function. By utilizing the closedform gradient and the velocity field representation of one parameter subgroups of diffeomorphisms, the resulting registration algorithm is diffeomorphic and fast. We contrast the algorithm with a traditional FS alternative
Spherical Demons: Fast Diffeomorphic LandmarkFree Surface Registration
 IEEE TRANSACTIONS ON MEDICAL IMAGING. 29(3):650–668, 2010
, 2010
"... We present the Spherical Demons algorithm for registering two spherical images. By exploiting spherical vector spline interpolation theory, we show that a large class of regularizors for the modified Demons objective function can be efficiently approximated on the sphere using iterative smoothing. B ..."
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Cited by 25 (5 self)
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We present the Spherical Demons algorithm for registering two spherical images. By exploiting spherical vector spline interpolation theory, we show that a large class of regularizors for the modified Demons objective function can be efficiently approximated on the sphere using iterative smoothing. Based on one parameter subgroups of diffeomorphisms, the resulting registration is diffeomorphic and fast. The Spherical Demons algorithm can also be modified to register a given spherical image to a probabilistic atlas. We demonstrate two variants of the algorithm corresponding to warping the atlas or warping the subject. Registration of a cortical surface mesh to an atlas mesh, both with more than 160k nodes requires less than 5 minutes when warping the atlas and less than 3 minutes when warping the subject on a Xeon 3.2GHz single processor machine. This is comparable to the fastest nondiffeomorphic landmarkfree surface registration algorithms. Furthermore, the accuracy of our method compares favorably to the popular FreeSurfer registration algorithm. We validate the technique in two different applications that use registration to transfer segmentation labels onto a new image: (1) parcellation of invivo cortical surfaces and (2) Brodmann area localization in exvivo cortical surfaces.
DTI REGISTRATION WITH EXACT FINITESTRAIN DIFFERENTIAL
, 2008
"... We propose an algorithm for the diffeomorphic registration of diffusion tensor images (DTI). Previous DTI registration algorithms using full tensor information suffer from difficulties in computing the differential of the Finite Strain tensor reorientation strategy. We borrow results from computer v ..."
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Cited by 15 (4 self)
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We propose an algorithm for the diffeomorphic registration of diffusion tensor images (DTI). Previous DTI registration algorithms using full tensor information suffer from difficulties in computing the differential of the Finite Strain tensor reorientation strategy. We borrow results from computer vision to derive an analytical gradient of the objective function. By leveraging on the closedform gradient and the oneparameter subgroups of diffeomorphisms, the resulting registration algorithm is diffeomorphic and fast. Registration of a pair of 128 × 128 × 60 diffusion tensor volumes takes 15 minutes. We contrast the algorithm with a classic alternative that does not take into account the reorientation in the gradient computation. We show with 40 pairwise DTI registrations that using the exact gradient achieves significantly better registration.
A Continuous STAPLE for Scalar, Vector and Tensor Images: An Application to DTI Analysis
, 2009
"... The comparison of images of a patient to a reference standard may enable the identification of structural brain changes. These comparisons may involve the use of vector or tensor images (i.e. 3D images for which each voxel can be represented as an RN vector) such as Diffusion Tensor Images (DTI) or ..."
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Cited by 14 (4 self)
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The comparison of images of a patient to a reference standard may enable the identification of structural brain changes. These comparisons may involve the use of vector or tensor images (i.e. 3D images for which each voxel can be represented as an RN vector) such as Diffusion Tensor Images (DTI) or transformations. The recent introduction of the LogEuclidean framework for diffeomorphisms and tensors has greatly simplified the use of these images by allowing all the computations to be performed on a vectorspace. However, many sources can result in a bias in the images, including disease or imaging artifacts. In order to estimate and compensate for these sources of variability, we developed a new algorithm, called continuous STAPLE, that estimates the reference standard underlying a set of vector images. This method, based on an ExpectationMaximization method similar in principle to the validation method STAPLE, also estimates for each image a set of parameters characterizing their bias and variance with respect to the reference standard. We demonstrate how to use these parameters for the detection of atypical images or outliers in the population under study. We identified significant differences between the tensors of diffusion images of multiple sclerosis patients and those of control subjects in the vicinity of lesions.