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| Author | Sergio Escalera; Ana Puig; Oscar Amoros; Maria Salamo | ||||
| Title | Intelligent GPGPU Classification in Volume Visualization: a framework based on Error-Correcting Output Codes | Type | Journal Article | ||
| Year | 2011 | Publication | Computer Graphics Forum | Abbreviated Journal  |
CGF |
| Volume | 30 | Issue | 7 | Pages | 2107-2115 |
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| Abstract | IF JCR 1.455 2010 25/99
In volume visualization, the definition of the regions of interest is inherently an iterative trial-and-error process finding out the best parameters to classify and render the final image. Generally, the user requires a lot of expertise to analyze and edit these parameters through multi-dimensional transfer functions. In this paper, we present a framework of intelligent methods to label on-demand multiple regions of interest. These methods can be split into a two-level GPU-based labelling algorithm that computes in time of rendering a set of labelled structures using the Machine Learning Error-Correcting Output Codes (ECOC) framework. In a pre-processing step, ECOC trains a set of Adaboost binary classifiers from a reduced pre-labelled data set. Then, at the testing stage, each classifier is independently applied on the features of a set of unlabelled samples and combined to perform multi-class labelling. We also propose an alternative representation of these classifiers that allows to highly parallelize the testing stage. To exploit that parallelism we implemented the testing stage in GPU-OpenCL. The empirical results on different data sets for several volume structures shows high computational performance and classification accuracy. |
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| Notes | MILAB; HuPBA | Approved | no | ||
| Call Number | Admin @ si @ EPA2011 | Serial | 1881 | ||
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| Author | Danna Xue; Javier Vazquez; Luis Herranz; Yang Zhang; Michael S Brown | ||||
| Title | Integrating High-Level Features for Consistent Palette-based Multi-image Recoloring | Type | Journal Article | ||
| Year | 2023 | Publication | Computer Graphics Forum | Abbreviated Journal |
CGF |
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| Abstract | Achieving visually consistent colors across multiple images is important when images are used in photo albums, websites, and brochures. Unfortunately, only a handful of methods address multi-image color consistency compared to one-to-one color transfer techniques. Furthermore, existing methods do not incorporate high-level features that can assist graphic designers in their work. To address these limitations, we introduce a framework that builds upon a previous palette-based color consistency method and incorporates three high-level features: white balance, saliency, and color naming. We show how these features overcome the limitations of the prior multi-consistency workflow and showcase the user-friendly nature of our framework. | ||||
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| Notes | CIC; MACO | Approved | no | ||
| Call Number | Admin @ si @ XVH2023 | Serial | 3883 | ||
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| Author | Marta Diez-Ferrer; Debora Gil; Elena Carreño; Susana Padrones; Samantha Aso; Vanesa Vicens; Cubero Noelia; Rosa Lopez Lisbona; Carles Sanchez; Agnes Borras; Antoni Rosell | ||||
| Title | Positive Airway Pressure-Enhanced CT to Improve Virtual Bronchoscopic Navigation | Type | Journal Article | ||
| Year | 2016 | Publication | Chest Journal | Abbreviated Journal |
CHEST |
| Volume | 150 | Issue | 4 | Pages | 1003A |
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| Notes | IAM; 600.096; 600.075 | Approved | no | ||
| Call Number | Admin @ si @ DGC2016 | Serial | 3099 | ||
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| Author | Mireia Sole; Joan Blanco; Debora Gil; Oliver Valero; B. Cardenas; G. Fonseka; E. Anton; Alvaro Pascual; Richard Frodsham; Zaida Sarrate | ||||
| Title | Time to match; when do homologous chromosomes become closer? | Type | Journal Article | ||
| Year | 2022 | Publication | Chromosoma | Abbreviated Journal |
CHRO |
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| Abstract | In most eukaryotes, pairing of homologous chromosomes is an essential feature of meiosis that ensures homologous recombination and segregation. However, when the pairing process begins, it is still under investigation. Contrasting data exists in Mus musculus, since both leptotene DSB-dependent and preleptotene DSB-independent mechanisms have been described. To unravel this contention, we examined homologous pairing in pre-meiotic and meiotic Mus musculus cells using a threedimensional fuorescence in situ hybridization-based protocol, which enables the analysis of the entire karyotype using DNA painting probes. Our data establishes in an unambiguously manner that 73.83% of homologous chromosomes are already paired at premeiotic stages (spermatogonia-early preleptotene spermatocytes). The percentage of paired homologous chromosomes increases to 84.60% at mid-preleptotene-zygotene stage, reaching 100% at pachytene stage. Importantly, our results demonstrate a high percentage of homologous pairing observed before the onset of meiosis; this pairing does not occur randomly, as the percentage was higher than that observed in somatic cells (19.47%) and between nonhomologous chromosomes (41.1%). Finally, we have also observed that premeiotic homologous pairing is asynchronous and independent of the chromosome size, GC content, or presence of NOR regions. | ||||
| Address | August, 2022 | ||||
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| Notes | IAM; 601.139; 600.145; 600.096 | Approved | no | ||
| Call Number | Admin @ si @ SBG2022 | Serial | 3719 | ||
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| Author | L. Calvet; A. Ferrer; M. Gomes; A. Juan; David Masip | ||||
| Title | Combining Statistical Learning with Metaheuristics for the Multi-Depot Vehicle Routing Problem with Market Segmentation | Type | Journal Article | ||
| Year | 2016 | Publication | Computers & Industrial Engineering | Abbreviated Journal |
CIE |
| Volume | 94 | Issue | Pages | 93-104 | |
| Keywords | Multi-Depot Vehicle Routing Problem; market segmentation applications; hybrid algorithms; statistical learning | ||||
| Abstract | In real-life logistics and distribution activities it is usual to face situations in which the distribution of goods has to be made from multiple warehouses or depots to the nal customers. This problem is known as the Multi-Depot Vehicle Routing Problem (MDVRP), and it typically includes two sequential and correlated stages: (a) the assignment map of customers to depots, and (b) the corresponding design of the distribution routes. Most of the existing work in the literature has focused on minimizing distance-based distribution costs while satisfying a number of capacity constraints. However, no attention has been given so far to potential variations in demands due to the tness of the customerdepot mapping in the case of heterogeneous depots. In this paper, we consider this realistic version of the problem in which the depots are heterogeneous in terms of their commercial o er and customers show di erent willingness to consume depending on how well the assigned depot ts their preferences. Thus, we assume that di erent customer-depot assignment maps will lead to di erent customer-expenditure levels. As a consequence, market-segmentation strategiesneed to be considered in order to increase sales and total income while accounting for the distribution costs. To solve this extension of the MDVRP, we propose a hybrid approach that combines statistical learning techniques with a metaheuristic framework. First, a set of predictive models is generated from historical data. These statistical models allow estimating the demand of any customer depending on the assigned depot. Then, the estimated expenditure of each customer is included as part of an enriched objective function as a way to better guide the stochastic local search inside the metaheuristic framework. A set of computational experiments contribute to illustrate our approach and how the extended MDVRP considered here di ers in terms of the proposed solutions from the traditional one. | ||||
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| Publisher | PERGAMON-ELSEVIER SCIENCE LTD | Place of Publication | Editor | ||
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| Series Editor | Series Title | Abbreviated Series Title | CIE | ||
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| ISSN | 0360-8352 | ISBN | Medium | ||
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| Notes | OR;MV; | Approved | no | ||
| Call Number | Admin @ si @ CFG2016 | Serial | 2749 | ||
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| Author | Katerine Diaz; Konstantia Georgouli; Anastasios Koidis; Jesus Martinez del Rincon | ||||
| Title | Incremental model learning for spectroscopy-based food analysis | Type | Journal Article | ||
| Year | 2017 | Publication | Chemometrics and Intelligent Laboratory Systems | Abbreviated Journal |
CILS |
| Volume | 167 | Issue | Pages | 123-131 | |
| Keywords | Incremental model learning; IGDCV technique; Subspace based learning; IdentificationVegetable oils; FT-IR spectroscopy | ||||
| Abstract | In this paper we propose the use of incremental learning for creating and improving multivariate analysis models in the field of chemometrics of spectral data. As main advantages, our proposed incremental subspace-based learning allows creating models faster, progressively improving previously created models and sharing them between laboratories and institutions without requiring transferring or disclosing individual spectra samples. In particular, our approach allows to improve the generalization and adaptability of previously generated models with a few new spectral samples to be applicable to real-world situations. The potential of our approach is demonstrated using vegetable oil type identification based on spectroscopic data as case study. Results show how incremental models maintain the accuracy of batch learning methodologies while reducing their computational cost and handicaps. | ||||
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| Notes | ADAS; 600.118 | Approved | no | ||
| Call Number | Admin @ si @ DGK2017 | Serial | 3002 | ||
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| Author | Onur Ferhat; Fernando Vilariño | ||||
| Title | Low Cost Eye Tracking: The Current Panorama | Type | Journal Article | ||
| Year | 2016 | Publication | Computational Intelligence and Neuroscience | Abbreviated Journal |
CIN |
| Volume | Issue | Pages | Article ID 8680541 | ||
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| Abstract | Despite the availability of accurate, commercial gaze tracker devices working with infrared (IR) technology, visible light gaze tracking constitutes an interesting alternative by allowing scalability and removing hardware requirements. Over the last years, this field has seen examples of research showing performance comparable to the IR alternatives. In this work, we survey the previous work on remote, visible light gaze trackers and analyze the explored techniques from various perspectives such as calibration strategies, head pose invariance, and gaze estimation techniques. We also provide information on related aspects of research such as public datasets to test against, open source projects to build upon, and gaze tracking services to directly use in applications. With all this information, we aim to provide the contemporary and future researchers with a map detailing previously explored ideas and the required tools. | ||||
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| Notes | MV; 605.103; 600.047; 600.097;SIAI | Approved | no | ||
| Call Number | Admin @ si @ FeV2016 | Serial | 2744 | ||
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| Author | C. Butakoff; Simone Balocco; F.M. Sukno; C. Hoogendoorn; C. Tobon-Gomez; G. Avegliano; A.F. Frangi | ||||
| Title | Left-ventricular Epi- and Endocardium Extraction from 3D Ultrasound Images Using an Automatically Constructed 3D ASM | Type | Journal Article | ||
| Year | 2016 | Publication | Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization | Abbreviated Journal |
CMBBE |
| Volume | 4 | Issue | 5 | Pages | 265-280 |
| Keywords | ASM; cardiac segmentation; statistical model; shape model; 3D ultrasound; cardiac segmentation | ||||
| Abstract | In this paper, we propose an automatic method for constructing an active shape model (ASM) to segment the complete cardiac left ventricle in 3D ultrasound (3DUS) images, which avoids costly manual landmarking. The automatic construction of the ASM has already been addressed in the literature; however, the direct application of these methods to 3DUS is hampered by a high level of noise and artefacts. Therefore, we propose to construct the ASM by fusing the multidetector computed tomography data, to learn the shape, with the artificially generated 3DUS, in order to learn the neighbourhood of the boundaries. Our artificial images were generated by two approaches: a faster one that does not take into account the geometry of the transducer, and a more comprehensive one, implemented in Field II toolbox. The segmentation accuracy of our ASM was evaluated on 20 patients with left-ventricular asynchrony, demonstrating plausibility of the approach. | ||||
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| ISSN | 2168-1163 | ISBN | Medium | ||
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| Notes | MILAB | Approved | no | ||
| Call Number | Admin @ si @ BBS2016 | Serial | 2449 | ||
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| Author | Jean-Pascal Jacob; Mariella Dimiccoli; Lionel Moisan | ||||
| Title | Active skeleton for bacteria modeling | Type | Journal Article | ||
| Year | 2016 | Publication | Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization | Abbreviated Journal |
CMBBE |
| Volume | 5 | Issue | 4 | Pages | 274-286 |
| Keywords | Bacteria modelling; medial axis; active contours; active skeleton; shape contraints | ||||
| 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 modeling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness, orientation), an improved boundary accuracy in noisy images, and a natural bacteria-centered 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 minimizing an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modeling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at this http URL | ||||
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| Notes | MILAB | Approved | no | ||
| Call Number | Admin @ si @ JDM2016 | Serial | 2711 | ||
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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 |
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| 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. | ||||
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| Publisher | Taylor & Francis Group | Place of Publication | Editor | ||
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| Notes | MILAB; | Approved | no | ||
| Call Number | Admin @ si @JDM2017 | Serial | 2784 | ||
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| Author | Simone Balocco; Carlo Gatta; Francesco Ciompi; A. Wahle; Petia Radeva; S. Carlier; G. Unal; E. Sanidas; J. Mauri; X. Carillo; T. Kovarnik; C. Wang; H. Chen; T. P. Exarchos; D. I. Fotiadis; F. Destrempes; G. Cloutier; Oriol Pujol; Marina Alberti; E. G. Mendizabal-Ruiz; M. Rivera; T. Aksoy; R. W. Downe; I. A. Kakadiaris | ||||
| Title | Standardized evaluation methodology and reference database for evaluating IVUS image segmentation | Type | Journal Article | ||
| Year | 2014 | Publication | Computerized Medical Imaging and Graphics | Abbreviated Journal |
CMIG |
| Volume | 38 | Issue | 2 | Pages | 70-90 |
| Keywords | IVUS (intravascular ultrasound); Evaluation framework; Algorithm comparison; Image segmentation | ||||
| Abstract | This paper describes an evaluation framework that allows a standardized and quantitative comparison of IVUS lumen and media segmentation algorithms. This framework has been introduced at the MICCAI 2011 Computing and Visualization for (Intra)Vascular Imaging (CVII) workshop, comparing the results of eight teams that participated.
We describe the available data-base comprising of multi-center, multi-vendor and multi-frequency IVUS datasets, their acquisition, the creation of the reference standard and the evaluation measures. The approaches address segmentation of the lumen, the media, or both borders; semi- or fully-automatic operation; and 2-D vs. 3-D methodology. Three performance measures for quantitative analysis have been proposed. The results of the evaluation indicate that segmentation of the vessel lumen and media is possible with an accuracy that is comparable to manual annotation when semi-automatic methods are used, as well as encouraging results can be obtained also in case of fully-automatic segmentation. The analysis performed in this paper also highlights the challenges in IVUS segmentation that remains to be solved. |
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| Notes | MILAB; LAMP; HuPBA; 600.046; 600.063; 600.079 | Approved | no | ||
| Call Number | Admin @ si @ BGC2013 | Serial | 2314 | ||
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| Author | Laura Igual; Joan Carles Soliva; Sergio Escalera; Roger Gimeno; Oscar Vilarroya; Petia Radeva | ||||
| Title | Automatic Brain Caudate Nuclei Segmentation and Classification in Diagnostic of Attention-Deficit/Hyperactivity Disorder | Type | Journal Article | ||
| Year | 2012 | Publication | Computerized Medical Imaging and Graphics | Abbreviated Journal |
CMIG |
| Volume | 36 | Issue | 8 | Pages | 591-600 |
| Keywords | Automatic caudate segmentation; Attention-Deficit/Hyperactivity Disorder; Diagnostic test; Machine learning; Decision stumps; Dissociated dipoles | ||||
| Abstract | We present a fully automatic diagnostic imaging test for Attention-Deficit/Hyperactivity Disorder diagnosis assistance based on previously found evidences of caudate nucleus volumetric abnormalities. The proposed method consists of different steps: a new automatic method for external and internal segmentation of caudate based on Machine Learning methodologies; the definition of a set of new volume relation features, 3D Dissociated Dipoles, used for caudate representation and classification. We separately validate the contributions using real data from a pediatric population and show precise internal caudate segmentation and discrimination power of the diagnostic test, showing significant performance improvements in comparison to other state-of-the-art methods. | ||||
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| Notes | OR; HuPBA; MILAB | Approved | no | ||
| Call Number | Admin @ si @ ISE2012 | Serial | 2143 | ||
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| Author | Michal Drozdzal; Santiago Segui; Carolina Malagelada; Fernando Azpiroz; Petia Radeva | ||||
| Title | Adaptable image cuts for motility inspection using WCE | Type | Journal Article | ||
| Year | 2013 | Publication | Computerized Medical Imaging and Graphics | Abbreviated Journal |
CMIG |
| Volume | 37 | Issue | 1 | Pages | 72-80 |
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| Abstract | The Wireless Capsule Endoscopy (WCE) technology allows the visualization of the whole small intestine tract. Since the capsule is freely moving, mainly by the means of peristalsis, the data acquired during the study gives a lot of information about the intestinal motility. However, due to: (1) huge amount of frames, (2) complex intestinal scene appearance and (3) intestinal dynamics that make difficult the visualization of the small intestine physiological phenomena, the analysis of the WCE data requires computer-aided systems to speed up the analysis. In this paper, we propose an efficient algorithm for building a novel representation of the WCE video data, optimal for motility analysis and inspection. The algorithm transforms the 3D video data into 2D longitudinal view by choosing the most informative, from the intestinal motility point of view, part of each frame. This step maximizes the lumen visibility in its longitudinal extension. The task of finding “the best longitudinal view” has been defined as a cost function optimization problem which global minimum is obtained by using Dynamic Programming. Validation on both synthetic data and WCE data shows that the adaptive longitudinal view is a good alternative to the traditional motility analysis done by video analysis. The proposed novel data representation a new, holistic insight into the small intestine motility, allowing to easily define and analyze motility events that are difficult to spot by analyzing WCE video. Moreover, the visual inspection of small intestine motility is 4 times faster then by means of video skimming of the WCE. | ||||
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| Notes | MILAB; OR; 600.046; 605.203 | Approved | no | ||
| Call Number | Admin @ si @ DSM2012 | Serial | 2151 | ||
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| Author | Simeon Petkov; Xavier Carrillo; Petia Radeva; Carlo Gatta | ||||
| Title | Diaphragm border detection in coronary X-ray angiographies: New method and applications | Type | Journal Article | ||
| Year | 2014 | Publication | Computerized Medical Imaging and Graphics | Abbreviated Journal |
CMIG |
| Volume | 38 | Issue | 4 | Pages | 296-305 |
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| Abstract | X-ray angiography is widely used in cardiac disease diagnosis during or prior to intravascular interventions. The diaphragm motion and the heart beating induce gray-level changes, which are one of the main obstacles in quantitative analysis of myocardial perfusion. In this paper we focus on detecting the diaphragm border in both single images or whole X-ray angiography sequences. We show that the proposed method outperforms state of the art approaches. We extend a previous publicly available data set, adding new ground truth data. We also compose another set of more challenging images, thus having two separate data sets of increasing difficulty. Finally, we show three applications of our method: (1) a strategy to reduce false positives in vessel enhanced images; (2) a digital diaphragm removal algorithm; (3) an improvement in Myocardial Blush Grade semi-automatic estimation. | ||||
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| Notes | MILAB; LAMP; 600.079 | Approved | no | ||
| Call Number | Admin @ si @ PCR2014 | Serial | 2468 | ||
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| Author | Jorge Bernal; F. Javier Sanchez; Gloria Fernandez Esparrach; Debora Gil; Cristina Rodriguez de Miguel; Fernando Vilariño | ||||
| Title | WM-DOVA Maps for Accurate Polyp Highlighting in Colonoscopy: Validation vs. Saliency Maps from Physicians | Type | Journal Article | ||
| Year | 2015 | Publication | Computerized Medical Imaging and Graphics | Abbreviated Journal |
CMIG |
| Volume | 43 | Issue | Pages | 99-111 | |
| Keywords | Polyp localization; Energy Maps; Colonoscopy; Saliency; Valley detection | ||||
| Abstract | We introduce in this paper a novel polyp localization method for colonoscopy videos. Our method is based on a model of appearance for polyps which defines polyp boundaries in terms of valley information. We propose the integration of valley information in a robust way fostering complete, concave and continuous boundaries typically associated to polyps. This integration is done by using a window of radial sectors which accumulate valley information to create WMDOVA1 energy maps related with the likelihood of polyp presence. We perform a double validation of our maps, which include the introduction of two new databases, including the first, up to our knowledge, fully annotated database with clinical metadata associated. First we assess that the highest value corresponds with the location of the polyp in the image. Second, we show that WM-DOVA energy maps can be comparable with saliency maps obtained from physicians' fixations obtained via an eye-tracker. Finally, we prove that our method outperforms state-of-the-art computational saliency results. Our method shows good performance, particularly for small polyps which are reported to be the main sources of polyp miss-rate, which indicates the potential applicability of our method in clinical practice. | ||||
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| ISSN | 0895-6111 | ISBN | Medium | ||
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| Notes | MV; IAM; 600.047; 600.060; 600.075;SIAI | Approved | no | ||
| Call Number | Admin @ si @ BSF2015 | Serial | 2609 | ||
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