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	Author	Albert Andaluz
	Title	Harmonic Phase Flow: User's guide			Type	Manual
	Year	2012	Publication	CVC	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	HPF is a plugin for the computation of clinical scores under Osirix. This manual provides a basic guide for experienced clinical staﬀ. Chapter 1 provides the theoretical background in which this plugin is based. Next, in chapter 2 we provide basic instructions for installing and uninstalling this plugin. chapter 3we shows a step-by-step scenario to compute clinical scores from tagged-MRI images with HPF. Finally, in chapter 4 we provide a quick guide for plugin developers
	Address	Bellaterra, Barcelona (Spain)
	Corporate Author	Computer Vision Center			Thesis
	Publisher	CVC	Place of Publication	Barcelona	Editor
	Language	english	Summary Language	english	Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ And2012			Serial	1863
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	Author	Patricia Marquez; Debora Gil ; Aura Hernandez-Sabate
	Title	Error Analysis for Lucas-Kanade Based Schemes			Type	Conference Article
	Year	2012	Publication	9th International Conference on Image Analysis and Recognition	Abbreviated Journal
	Volume	7324	Issue	I	Pages	184-191
	Keywords	Optical flow, Confidence measure, Lucas-Kanade, Cardiac Magnetic Resonance
	Abstract	Optical flow is a valuable tool for motion analysis in medical imaging sequences. A reliable application requires determining the accuracy of the computed optical flow. This is a main challenge given the absence of ground truth in medical sequences. This paper presents an error analysis of Lucas-Kanade schemes in terms of intrinsic design errors and numerical stability of the algorithm. Our analysis provides a confidence measure that is naturally correlated to the accuracy of the flow field. Our experiments show the higher predictive value of our confidence measure compared to existing measures.
	Address	Aveiro, Portugal
	Corporate Author				Thesis
	Publisher	Springer-Verlag Berlin Heidelberg	Place of Publication		Editor
	Language	english	Summary Language		Original Title
	Series Editor	Campilho, Aurélio and Kamel, Mohamed	Series Title	Lecture Notes in Computer Science	Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-31294-6	Medium
	Area		Expedition		Conference	ICIAR
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ MGH2012a			Serial	1899
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	Author	Albert Andaluz; Francesc Carreras; Cristina Santa Marta;Debora Gil
	Title	Myocardial torsion estimation with Tagged-MRI in the OsiriX platform			Type	Conference Article
	Year	2012	Publication	ISBI Workshop on Open Source Medical Image Analysis software	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	Myocardial torsion (MT) plays a crucial role in the assessment of the functionality of the left ventricle. For this purpose, the IAM group at the CVC has developed the Harmonic Phase Flow (HPF) plugin for the Osirix DICOM platform . We have validated its funcionalty on sequences acquired using different protocols and including healthy and pathological cases. Results show similar torsion trends for SPAMM acquisitions, with pathological cases introducing expected deviations from the ground truth. Finally, we provide the plugin free of charge at http://iam.cvc.uab.es
	Address	Barcelona, Spain
	Corporate Author				Thesis
	Publisher	IEEE	Place of Publication		Editor	Wiro Niessen (Erasmus MC) and Marc Modat (UCL)
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference	ISBI
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ ACS2012			Serial	1900
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	Author	Ferran Poveda; Enric Marti; Debora Gil; Francesc Carreras; Manel Ballester
	Title	Helical Structure of Ventricular Anatomy by Diffusion Tensor Cardiac MR Tractography			Type	Journal Article
	Year	2012	Publication	Journal of American College of Cardiology	Abbreviated Journal	JACC
	Volume	5	Issue	7	Pages	754-755
	Keywords
	Abstract	It is widely accepted that myocardial fiber architecture plays a critical role in myocardial contractility and relaxation (1). However, there is a lack of consensus about the distribution of the myocardial fibers and their spatial arrangement in the left and right ventricles. An understanding of the cardiac architecture should benefit the ventricular functional assessment, left ventricular reconstructive surgery planning, or resynchronization therapy in heart failure. Researchers have proposed several conceptual models to describe the architecture of the heart, ranging from gross dissection to histological presentation. The cardiac mesh model (2) proposes that the myocytes are arranged longitudinally and radially change their angulation along the myocardial depth. By contrast, the helical ventricular myocardial model states that the ventricular myocardium is a continuous anatomical helical layout of myocardial fibers (1
	Address
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1936-878X	ISBN		Medium
	Area		Expedition		Conference
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ PMG2012			Serial	1985
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	Author	Ferran Poveda; Debora Gil;Enric Marti
	Title	Multi-resolution DT-MRI cardiac tractography			Type	Conference Article
	Year	2012	Publication	Statistical Atlases And Computational Models Of The Heart: Imaging and Modelling Challenges	Abbreviated Journal
	Volume	7746	Issue		Pages	270-277
	Keywords
	Abstract	Even using objective measures from DT-MRI no consensus about myocardial architecture has been achieved so far. Streamlining provides good reconstructions at low level of detail, but falls short to give global abstract interpretations. In this paper, we present a multi-resolution methodology that is able to produce simplified representations of cardiac architecture. Our approach produces a reduced set of tracts that are representative of the main geometric features of myocardial anatomical structure. Experiments show that fiber geometry is preserved along reductions, which validates the simplified model for interpretation of cardiac architecture.
	Address	Nice, France
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-36960-5	Medium
	Area		Expedition		Conference	STACOM
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ PGM2012			Serial	1986
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	Author	Debora Gil;Agnes Borras;Ruth Aris;Mariano Vazquez;Pierre Lafortune; Guillame Houzeaux
	Title	What a difference in biomechanics cardiac fiber makes			Type	Conference Article
	Year	2012	Publication	Statistical Atlases And Computational Models Of The Heart: Imaging and Modelling Challenges	Abbreviated Journal
	Volume	7746	Issue		Pages	253-260
	Keywords
	Abstract	Computational simulations of the heart are a powerful tool for a comprehensive understanding of cardiac function and its intrinsic relationship with its muscular architecture. Cardiac biomechanical models require a vector field representing the orientation of cardiac fibers. A wrong orientation of the fibers can lead to a non-realistic simulation of the heart functionality. In this paper we explore the impact of the fiber information on the simulated biomechanics of cardiac muscular anatomy. We have used the John Hopkins database to perform a biomechanical simulation using both a synthetic benchmark fiber distribution and the data obtained experimentally from DTI. Results illustrate how differences in fiber orientation affect heart deformation along cardiac cycle.
	Address	Nice, France
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-36960-5	Medium
	Area		Expedition		Conference	STACOM
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ GBA2012			Serial	1987
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	Author	Sergio Vera; Miguel Angel Gonzalez Ballester; Debora Gil
	Title	Optimal Medial Surface Generation for Anatomical Volume Representations			Type	Book Chapter
	Year	2012	Publication	Abdominal Imaging. Computational and Clinical Applications	Abbreviated Journal	LNCS
	Volume	7601	Issue		Pages	265-273
	Keywords	Medial surface representation; volume reconstruction
	Abstract	Medial representations are a widely used technique in abdominal organ shape representation and parametrization. Those methods require good medial manifolds as a starting point. Any medial surface used to parametrize a volume should be simple enough to allow an easy manipulation and complete enough to allow an accurate reconstruction of the volume. Obtaining good quality medial surfaces is still a problem with current iterative thinning methods. This forces the usage of generic, pre-calculated medial templates that are adapted to the final shape at the cost of a drop in volume reconstruction. This paper describes an operator for generation of medial structures that generates clean and complete manifolds well suited for their further use in medial representations of abdominal organ volumes. While being simpler than thinning surfaces, experiments show its high performance in volume reconstruction and preservation of medial surface main branching topology.
	Address	Nice, France
	Corporate Author				Thesis
	Publisher	Springer Berlin Heidelberg	Place of Publication		Editor	Yoshida, Hiroyuki and Hawkes, David and Vannier, MichaelW.
	Language		Summary Language		Original Title
	Series Editor		Series Title	Lecture Notes in Computer Science	Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-33611-9	Medium
	Area		Expedition		Conference	STACOM
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ VGG2012b			Serial	1988
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	Author	Sergio Vera; Miguel Angel Gonzalez Ballester; Debora Gil
	Title	A medial map capturing the essential geometry of organs			Type	Conference Article
	Year	2012	Publication	ISBI Workshop on Open Source Medical Image Analysis software	Abbreviated Journal
	Volume		Issue		Pages	1691 - 1694
	Keywords	Medial Surface Representation, Volume Reconstruction,Geometry , Image reconstruction , Liver , Manifolds , Shape , Surface morphology , Surface reconstruction
	Abstract	Medial representations are powerful tools for describing and parameterizing the volumetric shape of anatomical structures. Accurate computation of one pixel wide medial surfaces is mandatory. Those surfaces must represent faithfully the geometry of the volume. Although morphological methods produce excellent results in 2D, their complexity and quality drops across dimensions, due to a more complex description of pixel neighborhoods. This paper introduces a continuous operator for accurate and efficient computation of medial structures of arbitrary dimension. Our experiments show its higher performance for medical imaging applications in terms of simplicity of medial structures and capability for reconstructing the anatomical volume
	Address	Barcelona,Spain
	Corporate Author				Thesis
	Publisher	IEEE	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1945-7928	ISBN	978-1-4577-1857-1	Medium
	Area		Expedition		Conference	ISBI
	Notes	IAM			Approved	no
	Call Number	IAM @ iam @ VGG2012a			Serial	1989
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	Author	Francesc Carreras; Jaume Garcia; Debora Gil; Sandra Pujadas; Chi ho Lion; R.Suarez-Arias; R.Leta; Xavier Alomar; Manuel Ballester; Guillem Pons-Llados
	Title	Left ventricular torsion and longitudinal shortening: two fundamental components of myocardial mechanics assessed by tagged cine-MRI in normal subjects			Type	Journal Article
	Year	2012	Publication	International Journal of Cardiovascular Imaging	Abbreviated Journal	IJCI
	Volume	28	Issue	2	Pages	273-284
	Keywords	Magnetic resonance imaging (MRI); Tagging MRI; Cardiac mechanics; Ventricular torsion
	Abstract	Cardiac magnetic resonance imaging (Cardiac MRI) has become a gold standard diagnostic technique for the assessment of cardiac mechanics, allowing the non-invasive calculation of left ventric- ular long axis longitudinal shortening (LVLS) and absolute myocardial torsion (AMT) between basal and apical left ventricular slices, a movement directly related to the helicoidal anatomic disposition of the myocardial fibers. The aim of this study is to determine AMT and LVLS behaviour and normal values from a group of healthy subjects. A group of 21 healthy volunteers (15 males) (age: 23–55 y.o., mean:30.7 ± 7.5) were prospectively included in an obser- vational study by Cardiac MRI. Left ventricular rotation (degrees) was calculated by custom-made software (Harmonic Phase Flow) in consecutive LV short axis planes tagged cine-MRI sequences. AMT was determined from the difference between basal and apical planes LV rotations. LVLS (%) was determined from the LV longitudinal and horizontal axis cine-MRI images. All the 21 cases studied were interpretable, although in three cases the value of the LV apical rotation could not be determined. The mean rotation of the basal and apical planes at end-systole were -3.71° ± 0.84° and 6.73° ± 1.69° (n:18) respectively, resulting in a LV mean AMT of 10.48° ± 1.63° (n:18). End-systolic mean LVLS was 19.07 ± 2.71%. Cardiac MRI allows for the calculation of AMT and LVLS, fundamental functional components of the ventricular twist mechanics conditioned, in turn, by the anatomical helical layout of the myocardial fibers. These values provide complementary information about systolic ventricular function in relation to the traditional parameters used in daily practice.
	Address
	Corporate Author				Thesis
	Publisher	Springer Netherlands	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1569-5794	ISBN		Medium
	Area		Expedition		Conference
	Notes	IAM;			Approved	no
	Call Number	IAM @ iam @ CGG2012			Serial	1496
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	Author	Aura Hernandez-Sabate; Debora Gil
	Title	The Benefits of IVUS Dynamics for Retrieving Stable Models of Arteries			Type	Book Chapter
	Year	2012	Publication	Intravascular Ultrasound	Abbreviated Journal
	Volume		Issue		Pages	185-206
	Keywords
	Abstract
	Address
	Corporate Author				Thesis
	Publisher	Intech	Place of Publication		Editor	Yasuhiro Honda
	Language	English	Summary Language	english	Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-953-307-900-4	Medium
	Area		Expedition		Conference
	Notes	IAM; ADAS			Approved	no
	Call Number	IAM @ iam @ HeG2012			Serial	1684
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	Author	Sergio Vera; Debora Gil; Antonio Lopez; Miguel Angel Gonzalez Ballester
	Title	Multilocal Creaseness Measure			Type	Journal
	Year	2012	Publication	The Insight Journal	Abbreviated Journal	IJ
	Volume		Issue		Pages
	Keywords	Ridges, Valley, Creaseness, Structure Tensor, Skeleton,
	Abstract	This document describes the implementation using the Insight Toolkit of an algorithm for detecting creases (ridges and valleys) in N-dimensional images, based on the Local Structure Tensor of the image. In addition to the filter used to calculate the creaseness image, a filter for the computation of the structure tensor is also included in this submission.
	Address
	Corporate Author	Alma IT Systems			Thesis
	Publisher		Place of Publication		Editor
	Language	english	Summary Language	english	Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	IAM;ADAS;			Approved	no
	Call Number	IAM @ iam @ VGL2012			Serial	1840
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	Author	Patricia Marquez;Debora Gil;Aura Hernandez-Sabate
	Title	A Complete Confidence Framework for Optical Flow			Type	Conference Article
	Year	2012	Publication	12th European Conference on Computer Vision – Workshops and Demonstrations	Abbreviated Journal
	Volume	7584	Issue	2	Pages	124-133
	Keywords	Optical flow, confidence measures, sparsification plots, error prediction plots
	Abstract	Medial representations are powerful tools for describing and parameterizing the volumetric shape of anatomical structures. Existing methods show excellent results when applied to 2D objects, but their quality drops across dimensions. This paper contributes to the computation of medial manifolds in two aspects. First, we provide a standard scheme for the computation of medial manifolds that avoid degenerated medial axis segments; second, we introduce an energy based method which performs independently of the dimension. We evaluate quantitatively the performance of our method with respect to existing approaches, by applying them to synthetic shapes of known medial geometry. Finally, we show results on shape representation of multiple abdominal organs, exploring the use of medial manifolds for the representation of multi-organ relations.
	Address
	Corporate Author				Thesis
	Publisher	Springer-Verlag	Place of Publication	Florence, Italy, October 7-13, 2012	Editor	Andrea Fusiello, Vittorio Murino ,Rita Cucchiara
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN		ISBN	978-3-642-33867-0	Medium
	Area		Expedition		Conference	ECCVW
	Notes	IAM;ADAS;			Approved	no
	Call Number	IAM @ iam @ MGH2012b			Serial	1991
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	Author	Sergio Vera; Debora Gil; Agnes Borras; F. Javier Sanchez; Frederic Perez; Marius G. Linguraru; Miguel Angel Gonzalez Ballester
	Title	Computation and Evaluation of Medial Surfaces for Shape Representation of Abdominal Organs			Type	Book Chapter
	Year	2012	Publication	Workshop on Computational and Clinical Applications in Abdominal Imaging	Abbreviated Journal
	Volume	7029	Issue		Pages	223–230
	Keywords	medial manifolds, abdomen.
	Abstract	Medial representations are powerful tools for describing and parameterizing the volumetric shape of anatomical structures. Existing methods show excellent results when applied to 2D objects, but their quality drops across dimensions. This paper contributes to the computation of medial manifolds in two aspects. First, we provide a standard scheme for the computation of medial manifolds that avoid degenerated medial axis segments; second, we introduce an energy based method which performs independently of the dimension. We evaluate quantitatively the performance of our method with respect to existing approaches, by applying them to synthetic shapes of known medial geometry. Finally, we show results on shape representation of multiple abdominal organs, exploring the use of medial manifolds for the representation of multi-organ relations.
	Address	Toronto; Canada;
	Corporate Author				Thesis
	Publisher	Springer Link	Place of Publication	Berlin	Editor	H. Yoshida et al
	Language	English	Summary Language	English	Original Title
	Series Editor		Series Title	Lecture Notes in Computer Science	Abbreviated Series Title	LNCS
	Series Volume		Series Issue		Edition
	ISSN	0302-9743	ISBN	978-3-642-28556-1	Medium
	Area		Expedition		Conference	ABDI
	Notes	IAM;MV			Approved	no
	Call Number	IAM @ iam @ VGB2012			Serial	1834
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	Author	Jose Manuel Alvarez; Felipe Lumbreras; Antonio Lopez; Theo Gevers
	Title	Understanding Road Scenes using Visual Cues			Type	Miscellaneous
	Year	2012	Publication	European Conference on Computer Vision	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	DEMO
	Address	Florence; Italy
	Corporate Author				Thesis
	Publisher		Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	ISE			Approved	no
	Call Number	Admin @ si @ ALL2012			Serial	2795
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	Author	Bhaskar Chakraborty; Michael Holte; Thomas B. Moeslund; Jordi Gonzalez
	Title	Selective Spatio-Temporal Interest Points			Type	Journal Article
	Year	2012	Publication	Computer Vision and Image Understanding	Abbreviated Journal	CVIU
	Volume	116	Issue	3	Pages	396-410
	Keywords
	Abstract	Recent progress in the field of human action recognition points towards the use of Spatio-TemporalInterestPoints (STIPs) for local descriptor-based recognition strategies. In this paper, we present a novel approach for robust and selective STIP detection, by applying surround suppression combined with local and temporal constraints. This new method is significantly different from existing STIP detection techniques and improves the performance by detecting more repeatable, stable and distinctive STIPs for human actors, while suppressing unwanted background STIPs. For action representation we use a bag-of-video words (BoV) model of local N-jet features to build a vocabulary of visual-words. To this end, we introduce a novel vocabulary building strategy by combining spatial pyramid and vocabulary compression techniques, resulting in improved performance and efficiency. Action class specific Support Vector Machine (SVM) classifiers are trained for categorization of human actions. A comprehensive set of experiments on popular benchmark datasets (KTH and Weizmann), more challenging datasets of complex scenes with background clutter and camera motion (CVC and CMU), movie and YouTube video clips (Hollywood 2 and YouTube), and complex scenes with multiple actors (MSR I and Multi-KTH), validates our approach and show state-of-the-art performance. Due to the unavailability of ground truth action annotation data for the Multi-KTH dataset, we introduce an actor specific spatio-temporal clustering of STIPs to address the problem of automatic action annotation of multiple simultaneous actors. Additionally, we perform cross-data action recognition by training on source datasets (KTH and Weizmann) and testing on completely different and more challenging target datasets (CVC, CMU, MSR I and Multi-KTH). This documents the robustness of our proposed approach in the realistic scenario, using separate training and test datasets, which in general has been a shortcoming in the performance evaluation of human action recognition techniques.
	Address
	Corporate Author				Thesis
	Publisher	Elsevier	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title		Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN	1077-3142	ISBN		Medium
	Area		Expedition		Conference
	Notes	ISE			Approved	no
	Call Number	Admin @ si @ CHM2012			Serial	1806
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