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	Author	Gerard Canal; Sergio Escalera; Cecilio Angulo
	Title	A Real-time Human-Robot Interaction system based on gestures for assistive scenarios			Type	Journal Article
	Year	2016	Publication	Computer Vision and Image Understanding	Abbreviated Journal	CVIU
	Volume	149	Issue		Pages	65-77
	Keywords	Gesture recognition; Human Robot Interaction; Dynamic Time Warping; Pointing location estimation
	Abstract	Natural and intuitive human interaction with robotic systems is a key point to develop robots assisting people in an easy and effective way. In this paper, a Human Robot Interaction (HRI) system able to recognize gestures usually employed in human non-verbal communication is introduced, and an in-depth study of its usability is performed. The system deals with dynamic gestures such as waving or nodding which are recognized using a Dynamic Time Warping approach based on gesture specific features computed from depth maps. A static gesture consisting in pointing at an object is also recognized. The pointed location is then estimated in order to detect candidate objects the user may refer to. When the pointed object is unclear for the robot, a disambiguation procedure by means of either a verbal or gestural dialogue is performed. This skill would lead to the robot picking an object in behalf of the user, which could present difficulties to do it by itself. The overall system — which is composed by a NAO and Wifibot robots, a KinectTM v2 sensor and two laptops — is firstly evaluated in a structured lab setup. Then, a broad set of user tests has been completed, which allows to assess correct performance in terms of recognition rates, easiness of use and response times.
	Address
	Corporate Author				Thesis
	Publisher	Elsevier B.V.	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	HuPBA;MILAB;			Approved	no
	Call Number	Admin @ si @ CEA2016			Serial	2768
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	Author	Isabelle Guyon; Imad Chaabane; Hugo Jair Escalante; Sergio Escalera; Damir Jajetic; James Robert Lloyd; Nuria Macia; Bisakha Ray; Lukasz Romaszko; Michele Sebag; Alexander Statnikov; Sebastien Treguer; Evelyne Viegas
	Title	A brief Review of the ChaLearn AutoML Challenge: Any-time Any-dataset Learning without Human Intervention			Type	Conference Article
	Year	2016	Publication	AutoML Workshop	Abbreviated Journal
	Volume		Issue	1	Pages	1-8
	Keywords	AutoML Challenge; machine learning; model selection; meta-learning; repre- sentation learning; active learning
	Abstract	The ChaLearn AutoML Challenge team conducted a large scale evaluation of fully automatic, black-box learning machines for feature-based classification and regression problems. The test bed was composed of 30 data sets from a wide variety of application domains and ranged across different types of complexity. Over six rounds, participants succeeded in delivering AutoML software capable of being trained and tested without human intervention. Although improvements can still be made to close the gap between human-tweaked and AutoML models, this competition contributes to the development of fully automated environments by challenging practitioners to solve problems under specific constraints and sharing their approaches; the platform will remain available for post-challenge submissions at http://codalab.org/AutoML.
	Address	New York; USA; June 2016
	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	ICML
	Notes	HuPBA;MILAB			Approved	no
	Call Number	Admin @ si @ GCE2016			Serial	2769
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	Author	Mohammad Ali Bagheri; Qigang Gao; Sergio Escalera
	Title	Action Recognition by Pairwise Proximity Function Support Vector Machines with Dynamic Time Warping Kernels			Type	Conference Article
	Year	2016	Publication	29th Canadian Conference on Artificial Intelligence	Abbreviated Journal
	Volume	9673	Issue		Pages	3-14
	Keywords
	Abstract	In the context of human action recognition using skeleton data, the 3D trajectories of joint points may be considered as multi-dimensional time series. The traditional recognition technique in the literature is based on time series dis(similarity) measures (such as Dynamic Time Warping). For these general dis(similarity) measures, k-nearest neighbor algorithms are a natural choice. However, k-NN classifiers are known to be sensitive to noise and outliers. In this paper, a new class of Support Vector Machine that is applicable to trajectory classification, such as action recognition, is developed by incorporating an efficient time-series distances measure into the kernel function. More specifically, the derivative of Dynamic Time Warping (DTW) distance measure is employed as the SVM kernel. In addition, the pairwise proximity learning strategy is utilized in order to make use of non-positive semi-definite (PSD) kernels in the SVM formulation. The recognition results of the proposed technique on two action recognition datasets demonstrates the ourperformance of our methodology compared to the state-of-the-art methods. Remarkably, we obtained 89 % accuracy on the well-known MSRAction3D dataset using only 3D trajectories of body joints obtained by Kinect
	Address	Victoria; Canada; May 2016
	Corporate Author				Thesis
	Publisher	Springer International Publishing	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	AI
	Notes	HuPBA;MILAB;			Approved	no
	Call Number	Admin @ si @ BGE2016b			Serial	2770
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	Author	Jun Wan; Yibing Zhao; Shuai Zhou; Isabelle Guyon; Sergio Escalera
	Title	ChaLearn Looking at People RGB-D Isolated and Continuous Datasets for Gesture Recognition			Type	Conference Article
	Year	2016	Publication	29th IEEE Conference on Computer Vision and Pattern Recognition Worshops	Abbreviated Journal
	Volume		Issue		Pages
	Keywords
	Abstract	In this paper, we present two large video multi-modal datasets for RGB and RGB-D gesture recognition: the ChaLearn LAP RGB-D Isolated Gesture Dataset (IsoGD)and the Continuous Gesture Dataset (ConGD). Both datasets are derived from the ChaLearn Gesture Dataset (CGD) that has a total of more than 50000 gestures for the “one-shot-learning” competition. To increase the potential of the old dataset, we designed new well curated datasets composed of 249 gesture labels, and including 47933 gestures manually labeled the begin and end frames in sequences.Using these datasets we will open two competitions on the CodaLab platform so that researchers can test and compare their methods for “user independent” gesture recognition. The first challenge is designed for gesture spotting and recognition in continuous sequences of gestures while the second one is designed for gesture classification from segmented data. The baseline method based on the bag of visual words model is also presented.
	Address	Las Vegas; USA; July 2016
	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	CVPRW
	Notes	HuPBA;MILAB;			Approved	no
	Call Number	Admin @ si @ WZZ2016			Serial	2771
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	Author	Florin Popescu; Stephane Ayache; Sergio Escalera; Xavier Baro; Cecile Capponi; Patrick Panciatici; Isabelle Guyon
	Title	From geospatial observations of ocean currents to causal predictors of spatio-economic activity using computer vision and machine learning			Type	Conference Article
	Year	2016	Publication	European Geosciences Union General Assembly	Abbreviated Journal
	Volume	18	Issue		Pages
	Keywords
	Abstract	The big data transformation currently revolutionizing science and industry forges novel possibilities in multimodal analysis scarcely imaginable only a decade ago. One of the important economic and industrial problems that stand to benefit from the recent expansion of data availability and computational prowess is the prediction of electricity demand and renewable energy generation. Both are correlates of human activity: spatiotemporal energy consumption patterns in society are a factor of both demand (weather dependent) and supply, which determine cost – a relation expected to strengthen along with increasing renewable energy dependence. One of the main drivers of European weather patterns is the activity of the Atlantic Ocean and in particular its dominant Northern Hemisphere current: the Gulf Stream. We choose this particular current as a test case in part due to larger amount of relevant data and scientific literature available for refinement of analysis techniques. This data richness is due not only to its economic importance but also to its size being clearly visible in radar and infrared satellite imagery, which makes it easier to detect using Computer Vision (CV). The power of CV techniques makes basic analysis thus developed scalable to other smaller and less known, but still influential, currents, which are not just curves on a map, but complex, evolving, moving branching trees in 3D projected onto a 2D image. We investigate means of extracting, from several image modalities (including recently available Copernicus radar and earlier Infrared satellites), a parameterized presentation of the state of the Gulf Stream and its environment that is useful as feature space representation in a machine learning context, in this case with the EC’s H2020-sponsored ‘See.4C’ project, in the context of which data scientists may find novel predictors of spatiotemporal energy flow. Although automated extractors of Gulf Stream position exist, they differ in methodology and result. We shall attempt to extract more complex feature representation including branching points, eddies and parameterized changes in transport and velocity. Other related predictive features will be similarly developed, such as inference of deep water flux long the current path and wider spatial scale features such as Hough transform, surface turbulence indicators and temperature gradient indexes along with multi-time scale analysis of ocean height and temperature dynamics. The geospatial imaging and ML community may therefore benefit from a baseline of open-source techniques useful and expandable to other related prediction and/or scientific analysis tasks.
	Address	Vienna; Austria; April 2016
	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	EGU
	Notes	HuPBA;MV;			Approved	no
	Call Number	Admin @ si @ PAE2016			Serial	2772
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	Author	Mohammad Ali Bagheri; Qigang Gao; Sergio Escalera
	Title	Support Vector Machines with Time Series Distance Kernels for Action Classification			Type	Conference Article
	Year	2016	Publication	IEEE Winter Conference on Applications of Computer Vision	Abbreviated Journal
	Volume		Issue		Pages	1-7
	Keywords
	Abstract	Despite the outperformance of Support Vector Machine (SVM) on many practical classification problems, the algorithm is not directly applicable to multi-dimensional trajectories having different lengths. In this paper, a new class of SVM that is applicable to trajectory classification, such as action recognition, is developed by incorporating two efficient time-series distances measures into the kernel function. Dynamic Time Warping and Longest Common Subsequence distance measures along with their derivatives are employed as the SVM kernel. In addition, the pairwise proximity learning strategy is utilized in order to make use of non-positive semi-definite kernels in the SVM formulation. The proposed method is employed for a challenging classification problem: action recognition by depth cameras using only skeleton data; and evaluated on three benchmark action datasets. Experimental results demonstrate the outperformance of our methodology compared to the state-ofthe-art on the considered datasets.
	Address	Lake Placid; NY (USA); March 2016
	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	WACV
	Notes	HuPBA;MILAB;			Approved	no
	Call Number	Admin @ si @ BGE2016a			Serial	2773
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	Author	Debora Gil; Sergio Vera; Agnes Borras; Albert Andaluz; Miguel Angel Gonzalez Ballester
	Title	Anatomical Medial Surfaces with Efficient Resolution of Branches Singularities			Type	Journal Article
	Year	2017	Publication	Medical Image Analysis	Abbreviated Journal	MIA
	Volume	35	Issue		Pages	390-402
	Keywords	Medial Representations; Shape Recognition; Medial Branching Stability ; Singular Points
	Abstract	Medial surfaces are powerful tools for shape description, but their use has been limited due to the sensibility existing methods to branching artifacts. Medial branching artifacts are associated to perturbations of the object boundary rather than to geometric features. Such instability is a main obstacle for a condent application in shape recognition and description. Medial branches correspond to singularities of the medial surface and, thus, they are problematic for existing morphological and energy-based algorithms. In this paper, we use algebraic geometry concepts in an energy-based approach to compute a medial surface presenting a stable branching topology. We also present an ecient GPU-CPU implementation using standard image processing tools. We show the method computational eciency and quality on a custom made synthetic database. Finally, we present some results on a medical imaging application for localization of abdominal pathologies.
	Address
	Corporate Author				Thesis
	Publisher	Elsevier B.V.	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	IAM; 600.060; 600.096; 600.075; 600.145			Approved	no
	Call Number	Admin @ si @ GVB2017			Serial	2775
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	Author	Daniel Hernandez; Alejandro Chacon; Antonio Espinosa; David Vazquez; Juan Carlos Moure; Antonio Lopez
	Title	Stereo Matching using SGM on the GPU			Type	Report
	Year	2016	Publication	Programming and Tuning Massively Parallel Systems	Abbreviated Journal	PUMPS
	Volume		Issue		Pages
	Keywords	CUDA; Stereo; Autonomous Vehicle
	Abstract	Dense, robust and real-time computation of depth information from stereo-camera systems is a computationally demanding requirement for robotics, advanced driver assistance systems (ADAS) and autonomous vehicles. Semi-Global Matching (SGM) is a widely used algorithm that propagates consistency constraints along several paths across the image. This work presents a real-time system producing reliable disparity estimation results on the new embedded energy efficient GPU devices. Our design runs on a Tegra X1 at 42 frames per second (fps) for an image size of 640x480, 128 disparity levels, and using 4 path directions for the SGM method.
	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		ISBN		Medium
	Area		Expedition		Conference	PUMPS
	Notes	ADAS; 600.085; 600.087; 600.076			Approved	no
	Call Number	ADAS @ adas @ HCE2016b			Serial	2776
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	Author	Joan M. Nuñez; Jorge Bernal; F. Javier Sanchez; Fernando Vilariño
	Title	Growing Algorithm for Intersection Detection (GRAID) in branching patterns			Type	Journal Article
	Year	2015	Publication	Machine Vision and Applications	Abbreviated Journal	MVAP
	Volume	26	Issue	2	Pages	387-400
	Keywords	Bifurcation ; Crossroad; Intersection ;Retina ; Vessel
	Abstract	Analysis of branching structures represents a very important task in fields such as medical diagnosis, road detection or biometrics. Detecting intersection landmarks Becomes crucial when capturing the structure of a branching pattern. We present a very simple geometrical model to describe intersections in branching structures based on two conditions: Bounded Tangency condition (BT) and Shortest Branch (SB) condition. The proposed model precisely sets a geometrical characterization of intersections and allows us to introduce a new unsupervised operator for intersection extraction. We propose an implementation that handles the consequences of digital domain operation that,unlike existing approaches, is not restricted to a particular scale and does not require the computation of the thinned pattern. The new proposal, as well as other existing approaches in the bibliography, are evaluated in a common framework for the first time. The performance analysis is based on two manually segmented image data sets: DRIVE retinal image database and COLON-VESSEL data set, a newly created data set of vascular content in colonoscopy frames. We have created an intersection landmark ground truth for each data set besides comparing our method in the only existing ground truth. Quantitative results confirm that we are able to outperform state-of-the-art performancelevels with the advantage that neither training nor parameter tuning is needed.
	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		ISBN		Medium
	Area		Expedition		Conference
	Notes	;SIAI			Approved	no
	Call Number	Admin @ si @MBS2015			Serial	2777
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	Author	Gloria Fernandez Esparrach; Jorge Bernal; Maria Lopez Ceron; Henry Cordova; Cristina Sanchez Montes; Cristina Rodriguez de Miguel; F. Javier Sanchez
	Title	Exploring the clinical potential of an automatic colonic polyp detection method based on the creation of energy maps			Type	Journal Article
	Year	2016	Publication	Endoscopy	Abbreviated Journal	END
	Volume	48	Issue	9	Pages	837-842
	Keywords
	Abstract	Background and aims: Polyp miss-rate is a drawback of colonoscopy that increases significantly in small polyps. We explored the efficacy of an automatic computer vision method for polyp detection. Methods: Our method relies on a model that defines polyp boundaries as valleys of image intensity. Valley information is integrated into energy maps which represent the likelihood of polyp presence. Results: In 24 videos containing polyps from routine colonoscopies, all polyps were detected in at least one frame. Mean values of the maximum of energy map were higher in frames with polyps than without (p<0.001). Performance improved in high quality frames (AUC= 0.79, 95%CI: 0.70-0.87 vs 0.75, 95%CI: 0.66-0.83). Using 3.75 as maximum threshold value, sensitivity and specificity for detection of polyps were 70.4% (95%CI: 60.3-80.8) and 72.4% (95%CI: 61.6-84.6), respectively. Conclusion: Energy maps showed a good performance for colonic polyp detection. This indicates a potential applicability in clinical practice.
	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		ISBN		Medium
	Area		Expedition		Conference
	Notes	MV;			Approved	no
	Call Number	Admin @ si @FBL2016			Serial	2778
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	Author	Gloria Fernandez Esparrach; Jorge Bernal; Cristina Rodriguez de Miguel; Debora Gil; Fernando Vilariño; Henry Cordova; Cristina Sanchez Montes; Isis Ara
	Title	Utilidad de la visión por computador para la localización de pólipos pequeños y planos			Type	Conference Article
	Year	2016	Publication	XIX Reunión Nacional de la Asociación Española de Gastroenterología, Gastroenterology Hepatology	Abbreviated Journal
	Volume	39	Issue	2	Pages	94
	Keywords
	Abstract
	Address	Madrid (Spain)
	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	AEGASTRO
	Notes	MV; IAM; 600.097;SIAI			Approved	no
	Call Number	Admin @ si @FBR2016			Serial	2779
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	Author	Jordina Torrents-Barrena; Aida Valls; Petia Radeva; Meritxell Arenas; Domenec Puig
	Title	Automatic Recognition of Molecular Subtypes of Breast Cancer in X-Ray images using Segmentation-based Fractal Texture Analysis			Type	Book Chapter
	Year	2015	Publication	Artificial Intelligence Research and Development	Abbreviated Journal
	Volume	277	Issue		Pages	247 - 256
	Keywords
	Abstract	Breast cancer disease has recently been classified into four subtypes regarding the molecular properties of the affected tumor region. For each patient, an accurate diagnosis of the specific type is vital to decide the most appropriate therapy in order to enhance life prospects. Nowadays, advanced therapeutic diagnosis research is focused on gene selection methods, which are not robust enough. Hence, we hypothesize that computer vision algorithms can offer benefits to address the problem of discriminating among them through X-Ray images. In this paper, we propose a novel approach driven by texture feature descriptors and machine learning techniques. First, we segment the tumour part through an active contour technique and then, we perform a complete fractal analysis to collect qualitative information of the region of interest in the feature extraction stage. Finally, several supervised and unsupervised classifiers are used to perform multiclass classification of the aforementioned data. The experimental results presented in this paper support that it is possible to establish a relation between each tumor subtype and the extracted features of the patterns revealed on mammograms.
	Address
	Corporate Author				Thesis
	Publisher	IOS Press	Place of Publication		Editor
	Language		Summary Language		Original Title
	Series Editor		Series Title	Frontiers in Artificial Intelligence and Applications	Abbreviated Series Title
	Series Volume		Series Issue		Edition
	ISSN		ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @TVR2015			Serial	2780
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	Author	Francesco Ciompi; Simone Balocco; Juan Rigla; Xavier Carrillo; Josefina Mauri; Petia Radeva
	Title	Computer-Aided Detection of Intra-Coronary Stent in Intravascular Ultrasound Sequences			Type	Journal Article
	Year	2016	Publication	Medical Physics	Abbreviated Journal	MP
	Volume	43	Issue	10	Pages
	Keywords
	Abstract	Purpose: An intraluminal coronary stent is a metal mesh tube deployed in a stenotic artery during Percutaneous Coronary Intervention (PCI), in order to prevent acute vessel occlusion. The identication of struts location and the denition of the stent shape are relevant for PCI planning 15 and for patient follow-up. We present a fully-automatic framework for Computer-Aided Detection (CAD) of intra-coronary stents in Intravascular Ultrasound (IVUS) image sequences. The CAD system is able to detect stent struts and estimate the stent shape. Methods: The proposed CAD uses machine learning to provide a comprehensive interpretation of the local structure of the vessel by means of semantic classication. The output of the classication 20 stage is then used to detect struts and to estimate the stent shape. The proposed approach is validated using a multi-centric data-set of 1,015 images from 107 IVUS sequences containing both metallic and bio-absorbable stents. Results: The method was able to detect structs in both metallic stents with an overall F-measure of 77.7% and a mean distance of 0.15 mm from manually annotated struts, and in bio-absorbable 25 stents with an overall F-measure of 77.4% and a mean distance of 0.09 mm from manually annotated struts. Conclusions: The results are close to the inter-observer variability and suggest that the system has the potential of being used as method for aiding percutaneous interventions.
	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		ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB			Approved	no
	Call Number	Admin @ si @ CBR2016			Serial	2819
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	Author	Mariella Dimiccoli
	Title	Fundamentals of cone regression			Type	Journal
	Year	2016	Publication	Journal of Statistics Surveys	Abbreviated Journal
	Volume	10	Issue		Pages	53-99
	Keywords	cone regression; linear complementarity problems; proximal operators.
	Abstract	Cone regression is a particular case of quadratic programming that minimizes a weighted sum of squared residuals under a set of linear inequality constraints. Several important statistical problems such as isotonic, concave regression or ANOVA under partial orderings, just to name a few, can be considered as particular instances of the cone regression problem. Given its relevance in Statistics, this paper aims to address the fundamentals of cone regression from a theoretical and practical point of view. Several formulations of the cone regression problem are considered and, focusing on the particular case of concave regression as an example, several algorithms are analyzed and compared both qualitatively and quantitatively through numerical simulations. Several improvements to enhance numerical stability and bound the computational cost are proposed. For each analyzed algorithm, the pseudo-code and its corresponding code in Matlab are provided. The results from this study demonstrate that the choice of the optimization approach strongly impacts the numerical performances. It is also shown that methods are not currently available to solve efficiently cone regression problems with large dimension (more than many thousands of points). We suggest further research to fill this gap by exploiting and adapting classical multi-scale strategy to compute an approximate solution.
	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	1935-7516	ISBN		Medium
	Area		Expedition		Conference
	Notes	MILAB;			Approved	no
	Call Number	Admin @ si @Dim2016a			Serial	2783
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	Author	Jean-Pascal Jacob; Mariella Dimiccoli; L. Moisan
	Title	Active skeleton for bacteria modelling			Type	Journal Article
	Year	2017	Publication	Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization	Abbreviated Journal	CMBBE
	Volume	5	Issue	4	Pages	274-286
	Keywords
	Abstract	The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of bacteria aging, the molecular components of interest are protein aggregates accumulated near bacteria boundaries. This particular location makes very ambiguous the correspondence between aggregates and cells, since computing accurately bacteria boundaries in phase-contrast time-lapse imaging is a challenging task. This paper proposes an active skeleton formulation for bacteria modelling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness and orientation), an improved boundary accuracy in noisy images and a natural bacteria-centred coordinate system that permits the intrinsic location of molecular components inside the cell. Starting from an initial skeleton estimate, the medial axis of the bacterium is obtained by minimising an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modelling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at http://fluobactracker.inrialpes.fr.
	Address
	Corporate Author				Thesis
	Publisher	Taylor & Francis Group	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	MILAB;			Approved	no
	Call Number	Admin @ si @JDM2017			Serial	2784
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