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1. A Generalized Asymmetric Dual-front Model for Active Contours and Image Segmentation

Author

Ke Chen, Jean-Marie Mirebeau, Jack Spencer, Da Chen, Minglei Shu, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Université Paris sciences et lettres (PSL), Shandong Artificial Intelligence Institute, University of Exeter, Laboratoire de Mathématiques d'Orsay (LMO), Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Department of Mathematical Sciences [Liverpool], University of Liverpool, ANR-19-P3IA-0001,PRAIRIE,PaRis Artificial Intelligence Research InstitutE(2019), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
Computational Geometry (cs.CG), FOS: Computer and information sciences, Geodesic, Computer science, Computer Vision and Pattern Recognition (cs.CV), ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Computer Science - Computer Vision and Pattern Recognition, 02 engineering and technology, Level set, 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], Segmentation, Fast marching method, ComputingMilieux_MISCELLANEOUS, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Image segmentation, Real image, Computer Graphics and Computer-Aided Design, Computer Science::Computer Vision and Pattern Recognition, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Computer Science - Computational Geometry, 020201 artificial intelligence & image processing, Vector field, Voronoi diagram, Algorithm, Software
Abstract

The Voronoi diagram-based dual-front active contour models are known as a powerful and efficient way for addressing the image segmentation and domain partitioning problems. In the basic formulation of the dual-front models, the evolving contours can be considered as the interfaces of adjacent Voronoi regions. Among these dual-front models, a crucial ingredient is regarded as the geodesic metrics by which the geodesic distances and the corresponding Voronoi diagram can be estimated. In this paper, we introduce a type of asymmetric quadratic metrics dual-front model. The metrics considered are built by the integration of the image features and a vector field derived from the evolving contours. The use of the asymmetry enhancement can reduce the risk of contour shortcut or leakage problems especially when the initial contours are far away from the target boundaries or the images have complicated intensity distributions. Moreover, the proposed dual-front model can be applied for image segmentation in conjunction with various region-based homogeneity terms. The numerical experiments on both synthetic and real images show that the proposed dual-front model indeed achieves encouraging results., Comment: Published in IEEE Transactions on Image Processing

Published
2020
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2. Impact of literacy on the functional connectivity of vision and language related networks

Author

Régine Kolinsky, Lucia Willadino Braga, Diana López-Barroso, Alexandre Guerreiro-Tauil, Stanislas Dehaene, Laurent D. Cohen, Michel Thiebaut de Schotten, Jose Morais, [López-Barroso,D, Thiebaut de Schotten,M, Cohen,L] Institut du Cerveau et de la Moelle épinière, ICM, Inserm U 1127, CNRS UMR 7225, Sorbonne Université, Paris, France. [López-Barroso,D] Cognitive Neurology and Aphasia Unit, Centro de Investigaciones Médico-Sanitarias, Instituto de Investigación Biomédica de Malaga (IBIMA), Málaga, Spain. [López-Barroso,D] Area of Psychobiology, Faculty of Psychology and Speech Therapy, University of Malaga, Málaga, Spain. [Thiebaut de Schotten,M] Brain Connectivity and Behaviour Laboratory, Sorbonne Universities, Paris, France. [Thiebaut de Schotten,M] Groupe d’Imagerie Neurofonctionnelle, Institut des Maladies Neurodégénératives-UMR 5293, CNRS, CEA University of Bordeaux, Bordeaux, France. [Morais,J, Kolinsky,R] Unité de Recherche en Neurosciences Cognitives (UNESCOG), Center for Research in Cognition and Neurosciences (CRCN), Université Libre de Bruxelles (ULB), Brussels, Belgium. [Kolinsky,R] Fonds de la Recherche Scientifique-FNRS, Brussels, Belgium. [Braga,LW, Guerreiro-Tauil,A] SARAH Network, International Center for Neurosciences and Rehabilitation, Brasilia, Brazil. [Dehaene,S] Collège de France, Paris, France . [Dehaene,S] INSERM, Cognitive Neuroimaging Unit, NeuroSpin Center, France. [Dehaene,S] Commissariat a l ’Energie Atomique, Direction des Sciences du Vivant, Institut Frédéric Joliot, Neurospin Center, France . [Dehaene,S] Université Paris-Sud 11, Orsay, France. [Cohen,L] Assistance Publique Hôpitaux de Paris (AP-HP), Hôpital de la Pitié Salêtrière, Department of Neurology, Paris, France., This work was supported by the Cr edit Agricole Ile-de-France, the French Agence Nationale de la Recherche (project PHENOTYPES, no. ANR-13-JSV4-0001-01), the SARAH Network of Rehabilitation Hospitals, and the program 'Investissement d’avenir' (ANR-10-IAIHU-06). R. Kolinsky is Research Director of the Fonds de la Recherche Scientifique–FNRS(FRS–FNRS), Belgium., Institut du Cerveau et de la Moëlle Epinière = Brain and Spine Institute (ICM), Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Pitié-Salpêtrière [AP-HP], Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Universidad de Málaga [Málaga] = University of Málaga [Málaga], Institut des Maladies Neurodégénératives [Bordeaux] (IMN), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS), Université libre de Bruxelles (ULB), Institut des Sciences du Vivant Frédéric JOLIOT (JOLIOT), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Chaire Psychologie cognitive expérimentale, Collège de France (CdF (institution)), Service de neurologie 1 [CHU Pitié-Salpétrière], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-CHU Pitié-Salpêtrière [AP-HP], Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU), Sorbonne Université-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Institut du Cerveau = Paris Brain Institute (ICM), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Pitié-Salpêtrière [AP-HP], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Sorbonne Université (SU)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Collège de France - Chaire Psychologie cognitive expérimentale, Service de Neurologie [CHU Pitié-Salpêtrière], IFR70-CHU Pitié-Salpêtrière [AP-HP], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU), Gestionnaire, Hal Sorbonne Université, Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), CHU Pitié-Salpêtrière [AP-HP], and Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)

Subjects
Male, genetic structures, Psychiatry and Psychology::Behavior and Behavior Mechanisms::Behavior::Communication::Language [Medical Subject Headings], Literacy, Alfabetización, Visual Word Form Area, Organisms::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Primates::Haplorhini::Catarrhini::Hominidae::Humans [Medical Subject Headings], [SCCO]Cognitive science, Functional connectivity, 0302 clinical medicine, Reading (process), Neural Pathways, Image Processing, Computer-Assisted, Percepción visual, Psychiatry and Psychology::Psychological Phenomena and Processes::Mental Processes::Perception::Visual Perception [Medical Subject Headings], Visual word form area, Phenomena and Processes::Musculoskeletal and Neural Physiological Phenomena::Nervous System Physiological Phenomena::Nervous System Physiological Processes::Neuronal Plasticity [Medical Subject Headings], ComputingMilieux_MISCELLANEOUS, media_common, Lectura, Language, Brain Mapping, Neuronal Plasticity, 05 social sciences, Analytical, Diagnostic and Therapeutic Techniques and Equipment::Diagnosis::Diagnostic Techniques and Procedures::Diagnostic Imaging::Neuroimaging::Functional Neuroimaging::Brain Mapping [Medical Subject Headings], [SDV.NEU.SC]Life Sciences [q-bio]/Neurons and Cognition [q-bio.NC]/Cognitive Sciences, Middle Aged, Magnetic Resonance Imaging, Independent Component Analysis, Temporal Lobe, Left fronto-parietal network, Identification (information), Neurology, Female, Psychology, Cognitive psychology, VWFA, Adult, Analytical, Diagnostic and Therapeutic Techniques and Equipment::Diagnosis::Diagnostic Techniques and Procedures::Diagnostic Imaging::Tomography::Magnetic Resonance Imaging [Medical Subject Headings], Cognitive Neuroscience, media_common.quotation_subject, Check Tags::Male [Medical Subject Headings], 050105 experimental psychology, lcsh:RC321-571, 03 medical and health sciences, Region of interest, Lenguaje, Neurologie, Neuroplasticity, Learning to read, Humans, 0501 psychology and cognitive sciences, Information Science::Information Science::Communication::Language::Language Arts::Reading [Medical Subject Headings], Persons::Persons::Age Groups::Adult [Medical Subject Headings], lcsh:Neurosciences. Biological psychiatry. Neuropsychiatry, Information Science::Information Science::Computing Methodologies::Image Processing, Computer-Assisted [Medical Subject Headings], Neurosciences cognitives, Persons::Persons::Age Groups::Adult::Middle Aged [Medical Subject Headings], Age of Acquisition, Check Tags::Female [Medical Subject Headings], Anatomy::Nervous System::Central Nervous System::Brain::Prosencephalon::Telencephalon::Cerebrum::Cerebral Cortex::Temporal Lobe [Medical Subject Headings], Anatomy::Nervous System::Neural Pathways [Medical Subject Headings], [SDV.NEU.SC] Life Sciences [q-bio]/Neurons and Cognition [q-bio.NC]/Cognitive Sciences, 030217 neurology & neurosurgery
Abstract

Learning to read leads to functional and structural changes in cortical brain areas related to vision and language. Previous evidence suggests that the Visual Word Form Area (VWFA), a region devoted to the recognition of letter strings in literate persons, acts as an interface between both systems. While different studies have performed univariate analyses to study the effects of literacy on brain function, little is known about its impact on whole functional networks, especially when literacy is acquired during adulthood. We investigated functional connectivity in three groups of adults with different literacy status: illiterates, ex-illiterates (i.e. who learned to read during adulthood), and literates (i.e. who learned to read in childhood). We used a data-driven, multivariate whole brain approach (Independent Component Analysis [ICA]) combined with a region of interest (ROI) analysis in order to explore the functional connectivity of the VWFA with four ICA networks related to vision and language functions. ICA allowed for the identification of four networks of interest: left fronto-parietal, auditory, medial visual and lateral visual functional networks, plus a control right fronto-parietal network. We explored the effects literacy on the connectivity between the VWFA and these networks, trying furthermore to disentangle the roles of reading proficiency and age of acquisition (i.e. literacy status) in these changes. Results showed that functional connectivity between the VWFA and the left fronto-parietal and lateral visual networks increased and decreased, respectively, with literacy. Moreover, the functional coupling of the VWFA and the auditory network decreased with literacy. This study provides novel insights in the mechanisms of reading acquisition and brain plasticity, putting to light the emergence of the VWFA as a bridge between language and vision. Further studies are required to characterize the interplay of proficiency and age of reading acquisition, and its relevance to models of brain plasticity across lifespan., SCOPUS: ar.j, info:eu-repo/semantics/published

Published
2020
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3. Reading music and words: The anatomical connectivity of musicians’ visual cortex

Author

Michel Thiebaut de Schotten, Valeria Mongelli, Laurent D. Cohen, Florence Bouhali, Sorbonne Université (SU), Institut du Cerveau et de la Moëlle Epinière = Brain and Spine Institute (ICM), Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Pitié-Salpêtrière [AP-HP], Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), CHU Pitié-Salpêtrière [AP-HP], Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), University of California, Max Planck Institute for Psycholinguistics, Max-Planck-Gesellschaft, University of Amsterdam [Amsterdam] (UvA), Institut des Maladies Neurodégénératives [Bordeaux] (IMN), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS), Fédération de neurologie 4, Sorbonne Université (SU)-CHU Pitié-Salpêtrière [AP-HP], Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), Gestionnaire, Hal Sorbonne Université, Institut du Cerveau = Paris Brain Institute (ICM), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Pitié-Salpêtrière [AP-HP], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Sorbonne Université (SU)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU), University of California (UC), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-CHU Pitié-Salpêtrière [AP-HP], Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Sorbonne Université (SU), and Sorbonne Université-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)

Subjects
Adult, Male, Musical notation, Cognitive Neuroscience, media_common.quotation_subject, [SDV]Life Sciences [q-bio], Musicians, Musical, Music notation, behavioral disciplines and activities, 050105 experimental psychology, lcsh:RC321-571, 03 medical and health sciences, [SCCO]Cognitive science, 0302 clinical medicine, Reading (process), medicine, Humans, Visual Pathways, 0501 psychology and cognitive sciences, Visual word form area, lcsh:Neurosciences. Biological psychiatry. Neuropsychiatry, ComputingMilieux_MISCELLANEOUS, Visual Cortex, media_common, Temporal cortex, Neural correlates of consciousness, [SDV.MHEP] Life Sciences [q-bio]/Human health and pathology, Structural connectivity, 05 social sciences, Structure-function relationship, Cognition, [SCCO] Cognitive science, humanities, [SDV] Life Sciences [q-bio], Diffusion Tensor Imaging, Visual cortex, medicine.anatomical_structure, Neurology, Reading, Visual Perception, Female, Psychology, human activities, Music, 030217 neurology & neurosurgery, [SDV.MHEP]Life Sciences [q-bio]/Human health and pathology, Cognitive psychology
Abstract

International audience; Musical score reading and word reading have much in common, from their historical origins to their cognitive foundations and neural correlates. In the ventral occipitotemporal cortex (VOT), the specialization of the so-called Visual Word Form Area for word reading has been linked to its privileged structural connectivity to distant language regions. Here we investigated how anatomical connectivity relates to the segregation of regions specialized for musical notation or words in the VOT. In a cohort of professional musicians and non-musicians, we used probabilistic tractography combined with task-related functional MRI to identify the connections of individually defined word- and music-selective left VOT regions. Despite their close proximity, these regions differed significantly in their structural connectivity, irrespective of musical expertise. The music-selective region was significantly more connected to posterior lateral temporal regions than the word-selective region, which, conversely, was significantly more connected to anterior ventral temporal cortex. Furthermore, musical expertise had a double impact on the connectivity of the music region. First, music tracts were significantly larger in musicians than in non-musicians, associated with marginally higher connectivity to perisylvian music-related areas. Second, the spatial similarity between music and word tracts was significantly increased in musicians, consistently with the increased overlap of language and music functional activations in musicians, as compared to non-musicians. These results support the view that, for music as for words, very specific anatomical connections influence the specialization of distinct VOT areas, and that reciprocally those connections are selectively enhanced by the expertise for word or music reading.

Published
2020
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4. A variational-based fusion model for non-uniform illumination image enhancement via contrast optimization and color correction

Author

Qi-Chong Tian, Laurent D. Cohen, Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
Imagination, Computer science, media_common.quotation_subject, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Color balance, Image processing, 02 engineering and technology, Search engine, 0202 electrical engineering, electronic engineering, information engineering, [INFO]Computer Science [cs], Computer vision, [MATH]Mathematics [math], Electrical and Electronic Engineering, ComputingMilieux_MISCELLANEOUS, media_common, Fusion, business.industry, Color correction, Non uniform illumination, 020206 networking & telecommunications, Image enhancement, Control and Systems Engineering, Signal Processing, 020201 artificial intelligence & image processing, Computer Vision and Pattern Recognition, Artificial intelligence, business, Software
Abstract

Non-uniform illumination images are of limited visibility due to under-exposure, over-exposure, or a combination of these two factors. Enhancing these images is a very challenging task in image processing. Although there are numerous enhancement methods to improve the visual quality of images, many of these methods produce undesirable results with regard to contrast and saturation improvements. In order to improve the visibility of images without over-enhancement or under-enhancement, a variational-based fusion method is proposed for adaptively enhancing non-uniform illumination images. First, a hue-preserving global contrast adaptive enhancement algorithm obtains a globally enhanced image. Second, a hue-preserving local contrast adaptive enhancement method produces a locally enhanced image. Finally, an enhanced result is obtained by a variational-based fusion model with contrast optimization and color correction. The final result represents a trade-off between global contrast and local contrast, and also maintains the color balance between the globally enhanced image and the locally enhanced image. This method produces visually desirable images in terms of contrast and saturation improvements. Experiments were conducted on a dataset that included different kinds of non-uniform illumination images. The results demonstrate that the proposed method outperforms the compared enhancement algorithms both qualitatively and quantitatively.

Published
2018
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5. A Breakthrough in image Processing: Partial Differential Equations and Variational methods

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), and Cohen, Laurent D.

Subjects
[INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [INFO.INFO-TI] Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], [MATH.MATH-AP] Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

6. Mangroves in the Leaves: Anatomy, Physiology, and Immunity of Epithemal Hydathodes

Author

Nathalie Leonhardt, Richard Berthomé, Martin H. Schattat, Laurent D. Noël, Patrick Laufs, Jean-Marc Routaboul, Aude Cerutti, Alain Jauneau, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), Institut Fédératif de Recherche 3450, Plateforme Imagerie TRI-Genotoul, Université Fédérale Toulouse Midi-Pyrénées, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Signalisation de l'Adaptation des Végétaux à l'Environnement (SAVE), Institut de Biosciences et Biotechnologies d'Aix-Marseille (ex-IBEB) (BIAM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), and Martin-Luther-University Halle-Wittenberg

Subjects
0106 biological sciences, 0303 health sciences, Guttation, [SDV]Life Sciences [q-bio], fungi, food and beverages, Physiology, Xylem, Plant Science, 15. Life on land, Biology, 01 natural sciences, Apoplast, Hydathode, Plant Leaves, 03 medical and health sciences, Immunity, Plant species, ComputingMilieux_MISCELLANEOUS, 030304 developmental biology, 010606 plant biology & botany
Abstract

Hydathodes are organs found on aerial parts of a wide range of plant species that provide almost direct access for several pathogenic microbes to the plant vascular system. Hydathodes are better known as the site of guttation, which is the release of droplets of plant apoplastic fluid to the outer leaf surface. Because these organs are only described through sporadic allusions in the literature, this review aims to provide a comprehensive view of hydathode development, physiology, and immunity by compiling a historic and contemporary bibliography. In particular, we refine the definition of hydathodes.We illustrate their important roles in the maintenance of plant osmotic balance, nutrient retrieval, and exclusion of deleterious chemicals from the xylem sap. Finally, we present our current understanding of the infection of hydathodes by adapted vascular pathogens and the associated plant immune responses.

Published
2019
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7. Vessel Extraction Using Crossing-Adaptive Minimal Path Model With Anisotropic Enhancement And Curvature Constraint

Author

Li Liu, Michel Paques, Huazhong Shu, Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Université Paris sciences et lettres (PSL), Centre de Recherche en Information Biomédicale sino-français (CRIBS), Université de Rennes (UR)-Southeast University [Jiangsu]-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut de la Vision, Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université de Rennes 1 (UR1), and Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Southeast University [Jiangsu]-Institut National de la Santé et de la Recherche Médicale (INSERM)

Subjects
Geodesic, Computer science, Mathematical analysis, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 010103 numerical & computational mathematics, 02 engineering and technology, Curvature, 01 natural sciences, Tensor field, Constraint (information theory), Position (vector), [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Metric (mathematics), 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Segmentation, 0101 mathematics, Anisotropy, ComputingMilieux_MISCELLANEOUS
Abstract

In this work, we propose a new minimal path model with a dynamic Riemannian metric to overcome the shortcuts problem in vessel extraction. The invoked metric consists of a crossing-adaptive anisotropic radius-lifted tensor field and a front freezing indicator. It is able to reduce the anisotropy of the metric on the crossing points and steer the front evolution by freezing the points causing high curvature of a geodesic. We validate our model on the DRIVE and IOSTAR datasets, and the segmentation accuracy is 0.861 and 0.881, respectively. The proposed method can extract the centreline position and vessel width efficiently and accuracy.

Published
2019
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8. Volumetric Meshes: a Neural Network-friendly representation for 3D shapes generative models

Author

Groscot, Raphaël, Bruna, Joan, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), Courant Institute of Mathematical Sciences [New York] (CIMS), New York University [New York] (NYU), and NYU System (NYU)-NYU System (NYU)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2019

9. Geodesics via asymmetric Heat diffusion based on Finsler Metric

Author

Yang, Fang, Chai, Li, Chen, Da, Cohen, Laurent D., and Cohen, Laurent D.

Subjects
[INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [INFO.INFO-TI] Computer Science [cs]/Image Processing [eess.IV], [MATH.MATH-AP] Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Published
2018

10. From Active Contours to Minimal Geodesic Paths: New Solutions to Active Contours Problems by Eikonal Equations

Author

Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Active contour model, Partial differential equation, Geodesic, Computer science, Eikonal equation, Computation, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 010103 numerical & computational mathematics, 02 engineering and technology, Image segmentation, Geodesic path, 01 natural sciences, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Path (graph theory), 0202 electrical engineering, electronic engineering, information engineering, Applied mathematics, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, 0101 mathematics, Fast marching method, ComputingMilieux_MISCELLANEOUS
Abstract

In this chapter, we give an overview of part of our previous work based on the minimal geodesic path framework and the Eikonal partial differential equation (PDE). We show that by designing adequate Riemannian and Randers geodesic metrics the minimal paths can be utilized to search for solutions to almost all of the active contour problems and to the Euler–Mumford elastica problem, which allows to blend the advantages from minimal geodesic paths and those original approaches, i.e., the active contours and elastica curves. The proposed minimal path-based models can be applied to deal with a broad variety of image analysis tasks such as boundary detection, image segmentation and tubular structure extraction. The numerical implementations for the computation of minimal paths are known to be quite efficient thanks to the Eikonal solvers such as the Finsler variant of the fast marching method introduced in Mirebeau (2014b).

Published
2019

11. Monsoon control on channel avulsions in the Late Quaternary Congo Fan

Author

Picot, M., Marsset, T., Droz, L., Dennielou, B., Baudin, F., Hermoso, M., de Rafélis, M., Sionneau, T., Cremer, M., Laurent, D., Bez, M., Laboratoire Géosciences Océan (LGO), Institut Français de Recherche pour l'Exploitation de la Mer - Brest (IFREMER Centre de Bretagne), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Commissariat à l'énergie atomique et aux énergies alternatives - Laboratoire d'Electronique et de Technologie de l'Information (CEA-LETI), Direction de Recherche Technologique (CEA) (DRT (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Department of Earth Sciences [Oxford], University of Oxford [Oxford], Géosciences Environnement Toulouse (GET), Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Observatoire Midi-Pyrénées (OMP), Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD), Max-Planck-Institut für Extraterrestrische Physik (MPE), TOTAL-Scientific and Technical Center Jean Féger (CSTJF), TOTAL FINA ELF, ISBlue - Interdisciplinary Graduate School for the Blue planet (2017), ANR-17-EURE-0015,ISBlue,Interdisciplinary Graduate School for the Blue planet(2017), Université de Bretagne Sud (UBS)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), University of Oxford, Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut national des sciences de l'Univers (INSU - CNRS)-Observatoire Midi-Pyrénées (OMP), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Météo-France -Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Météo-France -Centre National de la Recherche Scientifique (CNRS), and Centre scientifique et Technique Jean Feger (CSTJF)

Subjects
[SDU.STU.TE]Sciences of the Universe [physics]/Earth Sciences/Tectonics, [SDU.STU.VO]Sciences of the Universe [physics]/Earth Sciences/Volcanology, [SDU.STU.PG]Sciences of the Universe [physics]/Earth Sciences/Paleontology, ComputingMilieux_MISCELLANEOUS, [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography
Abstract

International audience

Published
2019

12. Geodesics via asymmetric Hear diffusion based on Finsler Metric

Author

Cohen, Laurent D., Yang, Fang, Chai, Li, Chen, Da, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

13. Minimal Paths for Tubular Structure Segmentation With Coherence Penalty and Adaptive Anisotropy

Author

Cohen, Laurent D., Chen, Da, Zhang, Jiong, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), Roche, and ANR-16-RHUS-0004 (RHU TRT cSVD), Agence Nationale de la Recherche

Subjects
FOS: Computer and information sciences, Geodesic, Computer science, Orientation (computer vision), Computer Vision and Pattern Recognition (cs.CV), Computer Science - Computer Vision and Pattern Recognition, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, Real image, Computer Graphics and Computer-Aided Design, Tree structure, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Path (graph theory), Metric (mathematics), 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Segmentation, Algorithm, Software, Fast marching method, ComputingMilieux_MISCELLANEOUS
Abstract

The minimal path method has proven to be particularly useful and efficient in tubular structure segmentation applications. In this paper, we propose a new minimal path model associated with a dynamic Riemannian metric embedded with an appearance feature coherence penalty and an adaptive anisotropy enhancement term. The features that characterize the appearance and anisotropy properties of a tubular structure are extracted through the associated orientation score. The proposed dynamic Riemannian metric is updated in the course of the geodesic distance computation carried out by the efficient single-pass fast marching method. Compared to state-of-the-art minimal path models, the proposed minimal path model is able to extract the desired tubular structures from a complicated vessel tree structure. In addition, we propose an efficient prior path-based method to search for vessel radius value at each centerline position of the target. Finally, we perform the numerical experiments on both synthetic and real images. The quantitive validation is carried out on retinal vessel images. The results indicate that the proposed model indeed achieves a promising performance., This manuscript has been accepted by IEEE Trans. Image Processing, 2018

Published
2018
Full Text
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14. Asymmetric Geodesic Distance Propagation for Active Contours

Author

Chen, Da, Spencer, Jack A., Mirebeau, Jean-Marie, Chen, Ke, Cohen, Laurent D., Centre National de la Recherche Scientifique (CNRS), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

15. A New Dynamic Minimal Path Model for Tubular Structure Centerline Delineation

Author

Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Pointwise, Geodesic, Orientation (computer vision), Computer science, business.industry, Feature extraction, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 010103 numerical & computational mathematics, 02 engineering and technology, Coherence (statistics), 01 natural sciences, Feature (computer vision), [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Metric (mathematics), Path (graph theory), 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Artificial intelligence, 0101 mathematics, business, Algorithm, ComputingMilieux_MISCELLANEOUS
Abstract

We propose a new dynamic Riemannian metric with adaptive anisotropy enhancement and with appearance feature coherence penalization. The appearance features are characterized by the orientation score maps. Unlike the static geodesic metrics which depend on local pointwise information, the dynamic metric can take into account the nonlocal feature coherence penalty in order to extract a desired structure from complicated background or from a vessel tree. We construct the metric using the information from two external reference points which are identified during the geodesic distance computation. Numerical experiments are performed in retinal vessels, including the independent results from the proposed dynamic metric itself and the comparison against existing minimal path models. The results show that the proposed metric indeed gets better performance than state-of-the-art geodesic metrics.

Published
2018

16. Fast Asymmetric Fronts Propagation for Image Segmentation

Author

Cohen, Laurent D., Chen, Da, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

17. Finsler Metrics for Fronts Propagation and Active Contours Evolution

Author

Chen, Da, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

18. A New Feature Coherence-Penalized DynamicMinimal Path Model for Tubularity Centerline Delineation

Author

Chen, Da, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

19. A New Finsler Minimal Path Model with Curvature Penalization for Image Segmentation and Closed Contour Detection

Author

Jean-Marie Mirebeau, Laurent D. Cohen, Da Chen, Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Laboratoire de Mathématiques d'Orsay (LM-Orsay), Centre National de la Recherche Scientifique (CNRS)-Université Paris-Sud - Paris 11 (UP11), and Cohen, Laurent D.

Subjects
Geodesic, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, 010103 numerical & computational mathematics, 02 engineering and technology, Topology, Curvature, 01 natural sciences, [INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], [MATH.MATH-AP] Mathematics [math]/Analysis of PDEs [math.AP], 0101 mathematics, ComputingMilieux_MISCELLANEOUS, ComputingMethodologies_COMPUTERGRAPHICS, Mathematics, Active contour model, Mean curvature, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Image segmentation, Real image, [INFO.INFO-TI] Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Metric (mathematics), 020201 artificial intelligence & image processing, Mathematics::Differential Geometry, Scalar curvature
Abstract

In this paper, we propose a new curvature penalized minimal path model for image segmentation via closed contour detection based on the weighted Euler elastica curves, firstly introduced to the field of computer vision in [22]. Our image segmentation method extracts a collection of curvature penalized minimal geodesics, concatenated to form a closed contour, by connecting a set of user-specified points. Globally optimal minimal paths can be computed by solving an Eikonal equation. This first order PDE is traditionally regarded as unable to penalize curvature, which is related to the path acceleration in active contour models. We introduce here a new approach that enables finding a global minimum of the geodesic energy including a curvature term. We achieve this through the use of a novel Finsler metric adding to the image domain the orientation as an extra space dimension. This metric is non-Riemannian and asymmetric, defined on an orientation lifted space, incorporating the curvature penalty in the geodesic energy. Experiments show that the proposed Finsler minimal path model indeed outperforms state-of-the-art minimal path models in both synthetic and real images.

Published
2016

20. Anisotropic Edge-based Balloon Eikonal Active Contours

Author

Cohen, Laurent D., Chen, Da, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2017

21. Global and Local Contrast Adaptive Enhancement for Non-Uniform Illumination Color Images

Author

Qi-Chong Tian, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Brightness, Computer science, business.industry, media_common.quotation_subject, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Non uniform illumination, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, 030218 nuclear medicine & medical imaging, Image (mathematics), 03 medical and health sciences, 0302 clinical medicine, Histogram, Distortion, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 0202 electrical engineering, electronic engineering, information engineering, Contrast (vision), 020201 artificial intelligence & image processing, Computer vision, Artificial intelligence, business, ComputingMilieux_MISCELLANEOUS, media_common
Abstract

Color images captured by digital devices may contain some non-uniform illuminations. Many enhancement methods produce undesirable results in the aspect of contrast improvement or naturalness preservation. A global and local contrast enhancement method is proposed for adaptively enhancing the non-uniform illumination images. Firstly, a novel global contrast adaptive enhancement algorithm obtains the global enhancement image. Secondly, a huepreserving local contrast adaptive enhancement algorithm produces the local enhancement image. Finally, a contrast-brightness-based fusion algorithm obtains the final result, which represents a trade-off between global contrast and local contrast. This method improves the visual quality and preserves the image naturalness. Experiments are conducted on a dataset including different kinds of non-uniform illumination images. Results demonstrate the proposed method outperforms the compared enhancement algorithms both qualitatively and quantitatively.

Published
2017

22. Naturalness preservation image contrast enhancement via histogram modification

Author

Qi-Chong Tian, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
business.industry, Computer science, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 020206 networking & telecommunications, Pattern recognition, 02 engineering and technology, Histogram modification, Image contrast, Naturalness, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 0202 electrical engineering, electronic engineering, information engineering, 020201 artificial intelligence & image processing, Artificial intelligence, business, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2017

23. Global Minimum For A Finsler Elastica Minimal Path Approach

Author

Da Chen, Jean-Marie Mirebeau, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Université Paris sciences et lettres (PSL), Université Paris-Sud - Paris 11 (UP11), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Laboratoire de Mathématiques d'Orsay (LM-Orsay), and Centre National de la Recherche Scientifique (CNRS)-Université Paris-Sud - Paris 11 (UP11)

Subjects
Computational Geometry (cs.CG), FOS: Computer and information sciences, Perceptual Grouping, Geodesic, Computer Vision and Pattern Recognition (cs.CV), Tubular Structure Extraction, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Computer Science - Computer Vision and Pattern Recognition, Image Segmentation ·, 010103 numerical & computational mathematics, 02 engineering and technology, Curvature, 01 natural sciences, symbols.namesake, Finsler Metric, Artificial Intelligence, Curvature Penalty, 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 0101 mathematics, Fast marching method, ComputingMilieux_MISCELLANEOUS, Mathematics, ComputingMethodologies_COMPUTERGRAPHICS, Active contour model, Eikonal equation, Mathematical analysis, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Euler Elastica Curve, Minimal Path, Anisotropic Fast Marching Method, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Path (graph theory), Metric (mathematics), Euler's formula, symbols, Computer Science - Computational Geometry, 020201 artificial intelligence & image processing, Eikonal Equation ·, Computer Vision and Pattern Recognition, Mathematics::Differential Geometry, Software
Abstract

In this paper, we propose a novel curvature-penalized minimal path model via an orientation-lifted Finsler metric and the Euler elastica curve. The original minimal path model computes the globally minimal geodesic by solving an Eikonal partial differential equation (PDE). Essentially, this first-order model is unable to penalize curvature which is related to the path rigidity property in the classical active contour models. To solve this problem, we present an Eikonal PDE-based Finsler elastica minimal path approach to address the curvature-penalized geodesic energy minimization problem. We were successful at adding the curvature penalization to the classical geodesic energy. The basic idea of this work is to interpret the Euler elastica bending energy via a novel Finsler elastica metric that embeds a curvature penalty. This metric is non-Riemannian, anisotropic and asymmetric, and is defined over an orientation-lifted space by adding to the image domain the orientation as an extra space dimension. Based on this orientation lifting, the proposed minimal path model can benefit from both the curvature and orientation of the paths. Thanks to the fast marching method, the global minimum of the curvature-penalized geodesic energy can be computed efficiently. We introduce two anisotropic image data-driven speed functions that are computed by steerable filters. Based on these orientation-dependent speed functions, we can apply the proposed Finsler elastica minimal path model to the applications of closed contour detection, perceptual grouping and tubular structure extraction. Numerical experiments on both synthetic and real images show that these applications of the proposed model indeed obtain promising results., Improve the clarity of this manuscript

Published
2017

24. Color Consistency for Photo Collections without Gamut Problems

Author

Qi-Chong Tian, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
business.industry, Computer science, Color correction, media_common.quotation_subject, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Color balance, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 020207 software engineering, 02 engineering and technology, Color consistency, Gamut, Histogram, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Computer vision, Quality (business), Artificial intelligence, business, ComputingMilieux_MISCELLANEOUS, media_common
Abstract

In this paper, we present a color consistency technique in order to make images in the same collection share the same color style and to avoid gamut problems. Some previous methods define simple global parameter-based models and use optimizing algorithms to obtain the unknown parameters, which usually cause gamut problems in bright and dark regions. Our method is based on the range-preserving histogram specification and can enforce images to share the same color style, without resulting in gamut problems. We divide the input images into two sets having respectively high visual quality and low visual quality. The high visual quality images are used to make color balance. And then the low visual quality images are color transferred using the previous corrected high quality images. Our experiments indicate that such histogram-based color correction method is better than the compared algorithm.

Published
2017

25. Histogram-based Color Transfer for ImageStitching

Author

Tian, QI-Chong, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2017

26. Color Correction in Image Stitching Using Histogram Specification and Global Mapping

Author

Qi-Chong Tian, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Color histogram, Computer science, Color normalization, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, Color balance, 02 engineering and technology, HSL and HSV, Image stitching, Image texture, Histogram, Color depth, 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], Computer vision, Image gradient, Histogram equalization, ComputingMilieux_MISCELLANEOUS, Demosaicing, Standard test image, Color image, business.industry, Binary image, Color correction, Histogram matching, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 020207 software engineering, Image segmentation, Color quantization, Computer Science::Computer Vision and Pattern Recognition, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 020201 artificial intelligence & image processing, Artificial intelligence, business, Image histogram
Abstract

Color correction is an important problem in image stitching. There is a color inconsistency issue between the images (good quality as a reference image and bad quality as a test image) to be stitched. This paper presents a color correction approach with histogram specification and global mapping. The proposed algorithm can make images share the same color style and obtain color consistency. There are four main steps in this algorithm. Firstly, overlapping regions between a reference image and a test image are obtained. Secondly, an exact histogram specification is conducted for the overlapping region in the test image using the histogram of the overlapping region in the reference image. Thirdly, a global mapping function is obtained by minimizing color differences with an iterative method. Lastly, the global mapping function is applied to the whole test image to produce a color corrected image. Both synthetic dataset and real dataset are tested. The experiments demonstrate that the proposed algorithm outperforms other methods both quantitatively and qualitatively.

Published
2016

27. Geodesic curves for region-based segmentation

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

28. 3D vessel extraction in the rat brain from Ultrasensitive Doppler images

Author

Mickael Tanter, Emmanuel Cohen, Laurent D. Cohen, Charlie Demene, Thomas Deffieux, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), Institut Langevin - Ondes et Images (UMR7587) (IL), Sorbonne Université (SU)-Ecole Superieure de Physique et de Chimie Industrielles de la Ville de Paris (ESPCI Paris), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Paris (UP)-Centre National de la Recherche Scientifique (CNRS)

Subjects
medicine.medical_specialty, Computer science, High sensitive, 050105 experimental psychology, 03 medical and health sciences, symbols.namesake, 0302 clinical medicine, medicine, Medical imaging, High spatial resolution, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 0501 psychology and cognitive sciences, ComputingMilieux_MISCELLANEOUS, Tomographic reconstruction, business.industry, 05 social sciences, Ultrasound, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Rat brain, Surgery, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], symbols, Ultrasonic sensor, business, Doppler effect, 030217 neurology & neurosurgery, Biomedical engineering
Abstract

Ultrasensitive Doppler is a recent medical imaging technique enabling high sensitive acquisition of blood flows which can detect small vascular features without contrast agents. Applied to cerebral tomographic imaging of rodents, this method produces very fine vascular 3D maps of the brain at high spatial resolution of 100 μm. These vascular networks contain characteristic tubular structures that could be used as landmarks to localize the position of the ultrasonic probe and take advantage of the easy-to-use property of ultrasound devices. In this study, we propose a computational method that performs 3D extraction of vascular paths and estimates effective diameters of vessels, from ultrasensitive Doppler 3D reconstructed images of the rat brain. The method is based on the fast marching algorithm to extract curves minimizing length according to a relevant metric.

Published
2016

29. Finsler Geodesic Evolution Model for Region based Active Contours

Author

Chen, Da, Mirebeau, Jean-Marie, Cohen, Laurent D., Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Laboratoire de Mathématiques d'Orsay (LM-Orsay), and Centre National de la Recherche Scientifique (CNRS)-Université Paris-Sud - Paris 11 (UP11)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

30. Ultrasensitive Doppler based neuronavigation system for preclinical brain imaging applications

Author

Emmanuel Cohen, Laurent D. Cohen, Charlie Demene, Elodie Tiran, Mickael Tanter, Thomas Deffieux, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL), Institut Langevin - Ondes et Images (UMR7587) (IL), Sorbonne Université (SU)-Ecole Superieure de Physique et de Chimie Industrielles de la Ville de Paris (ESPCI Paris), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Paris (UP)-Centre National de la Recherche Scientifique (CNRS)

Subjects
Neuronavigation system, Computer science, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, 01 natural sciences, Functional imaging, Functional brain, symbols.namesake, medicine.anatomical_structure, Neuroimaging, Atlas (anatomy), [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 0103 physical sciences, 0202 electrical engineering, electronic engineering, information engineering, Medical imaging, symbols, medicine, Premovement neuronal activity, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, 010301 acoustics, Neuroscience, Doppler effect, ComputingMilieux_MISCELLANEOUS
Abstract

Ultrasensitive Doppler is a recent medical imaging technique enabling high sensitive acquisition of blood flows which can detect small vascular features without contrast agents. Applied to cerebral imaging of rodents, this method produces very fine vascular maps of the brain at high spatial resolution and leads to functional imaging of brain neuronal activity. These vascular networks contain crucial information about organs structure, and could be used as landmarks to 3D navigate the brain and register external atlas to the data. This study investigates a first step using a 2D correlation-based method to locate in real time young rat, rat, or mouse brain vascular prints in a 3D functional brain atlas.

Published
2016

31. Geodesic Distance and Curves Through Isotropic and Anisotropic Heat Equations on Images and Surfaces

Author

Laurent D. Cohen, Fang Yang, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Statistics and Probability, Geodesic, Anisotropic diffusion, Applied Mathematics, Computation, Isotropy, Mathematical analysis, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 020207 software engineering, Geometry, 02 engineering and technology, Condensed Matter Physics, Real image, Modeling and Simulation, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Heat equation, Geometry and Topology, Computer Vision and Pattern Recognition, Anisotropy, Eigenvalues and eigenvectors, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

This paper proposes a method to extract geodesic distance and geodesic curves using heat diffusion. The method is based on Varadhan's formula that helps to obtain a numerical approximation of geodesic distance according to metrics based on different heat flows. The heat equation can be utilized by regarding an image or a surface as a medium for heat diffusion and letting the user set at least one source point in the domain. Both isotropic and anisotropic diffusions are considered here to obtain geodesics according to their respective metrics. (1) In the part of the paper where we deal with the isotropic case, we use gray-level intensity to compute the conductivity, i.e., those pixels with gray-levels similar to the source point would have higher conductivity. The model of Perona and Malik, which inhibits heat from diffusing out of homogeneous regions, is also used for geodesic computations in this paper. The two methods are combined and used for more complicated cases. We can also use the norm of the gradient of an image as the feature in the Perona and Malik model to make the heat diffuse along boundaries and edges. (2) For the anisotropic case, we use different eigenvectors and eigenvalues to compose the diffusion tensors to concentrate heat flow along chosen directions. Furthermore, to automate the process of extracting geodesic lines, we propose two automatic methods: a new voting method and a key point method, which are both especially designed for the heat-based method. Our algorithms are tested on synthetic and real images as well as on a mesh. The results are very promising and demonstrate the robustness of the algorithms.

Published
2016

32. Xanthomonas Whole Genome Sequencing: Phylogenetics, Host Specificity and Beyond

Author

Laurent D. Noël, Alice Boulanger, Laboratoire des interactions plantes micro-organismes (LIPM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Recherche Agronomique (INRA), and Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS)

Subjects
0106 biological sciences, 0301 basic medicine, Microbiology (medical), Xanthomonas, lcsh:QR1-502, type III effector repertoire, Plant Science, Plant disease resistance, tomato, 01 natural sciences, Genome, Microbiology, lcsh:Microbiology, bacterial spot disease, 03 medical and health sciences, Pathogenomics, pepper, Phylogenetics, Botany, Pseudomonas syringae, host specificity, AvrBsT, ComputingMilieux_MISCELLANEOUS, Original Research, Comparative genomics, Genetics, Whole genome sequencing, biology, Microbiology and Parasitology, fungi, food and beverages, phylogenomics, 15. Life on land, biology.organism_classification, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, Microbiologie et Parasitologie, 030104 developmental biology, Frontiers Commentary, XopQ, 010606 plant biology & botany
Abstract

Crop diseases impact both yield and product quality and result in important health, economic, environmental, and societal issues worldwide (Scholthof, 2003; Strange and Scott, 2005). These diseases are caused by microorganisms like viruses, fungi, and bacteria. Among phytopathogenic bacteria, the genus Xanthomonas comprises 20 species which together infect more than 400 plant species, among which several important crops such as rice, cassava, cabbages, citrus, or tomato (Mansfield et al., 2012). In contrast, individual Xanthomonas species have a narrow host range usually restricted to a specific plant genus or species. The genetic and molecular bases for host range determination in Xanthomonas are essentially unknown at this date (Jacques et al., 2016): It likely involves bacterial factors enhancing the physiological adaptation to the plant environment (e.g., tropism, attachment, nutrition, degradation of plant compounds) or limiting the elicitation of plant immunity (Buttner and Bonas, 2010). Elicitors of plant immunity include both pathogen-associated molecular patterns (PAMP) and type III effectors (T3E) (Jones and Dangl, 2006). PAMP-triggered immunity (PTI) is the first layer of plant's innate immunity and strongly restricts host range for most bacteria. Key to pathogenicity and host range expansion is pathogen's capacity to suppress PTI. This is the prime function of most T3E known to date. T3E proteins are directly injected inside plant cells using a molecular syringe known as the type III secretion system. As a countermeasure, given T3E might specifically elicit potent immune responses known as effector-triggered immunity (ETI) in a set of plant species resulting in a reduced host range. It is thus key to determine pathogen T3E repertoires. Large scale sequencing of collections of phytopathogenic bacteria at the inter- and intra-specific level has revealed a large diversity of T3E repertoires leading to the definition of core vs. accessory T3E (Potnis et al., 2011; Bart et al., 2012; Roux et al., 2015). The paper by Schwartz et al. (2015) perfectly illustrates the power of comparative genomics to understand pathogenicity and host specificity of this important genus of pathogens. The authors focussed on bacterial spot disease of tomato and pepper caused by three distinct Xanthomonas species [gardneri (Xg), perforans (Xp), and euvesicatoria (Xe)]. Draft genome sequences were determined for 67 strains sampled in the southeastern and midwestern United States between 1994 and 2013 and subjected to comparative analysis. Importantly, core genome analysis supported the recent reclassification of these strains in three distinct bacterial species (Jones et al., 2004) and evidenced further intraspecific organization of Xp strains. Identification, comparison, and analysis of T3E repertoires allowed the definition of surprisingly large core effectomes (24/29 T3E in Xp; 26/31 in Xe; 19/25 in Xg). Thirteen T3E are conserved among all three species. Identification of these core T3E and their sequence conservation should prove instrumental to design durable disease resistance strategies against bacterial spot disease in tomato and pepper. Such large interspecific core T3E repertoire might highlight the need for a future larger worldwide sampling of Xanthomonas infecting tomato and pepper. Beyond presence-absence of T3E, the conservation of T3E genes or proteins was also investigated in Xe, Xp, and Xg revealing the evolution and dynamics of these pathogenicity determinants. Overall, a lot more diversity is observed in T3E gene repertoires than in core genome analyses, suggesting a central role of horizontal gene transfer and distinct evolutionary forces applying to T3E genes. In Xe, the authors witnessed the evolution of T3E gene profiles over a 20 years period which could have suggested that such effect was driven by plant breeding and the introduction of novel tomato or pepper varieties. However, changes in prevalent bacterial species on tomato observed the last decade in different states (Florida, Ohio, Michigan) is not associated with strong changes in tomato cultivars used in commercial production fields (Potnis et al., 2015). Abiotic conditions could drive diversity and prevalent strains in diseased tomato fields. For instance, Xg is generally prevalent in cooler regions as observed for Pseudomonas syringae pv. tomato, another bacterial spot agent (Potnis et al., 2015). These two pathogens share several T3Es that are not present in other strains of Xanthomonas associated with bacterial spot. Horizontal gene transfer between different pathogens found in similar regions could be a strong source of diversity. The second part of the analysis reports on host range determination in Xp by two T3E, AvrBsT and XopQ. Indeed, the authors demonstrate that the loss of avrBsT alone explains Xp pathogenicity on pepper while the double loss of avrBsT and xopQ renders Xp pathogenic on Nicotiana benthamiana. This result illustrates how plant immunity might restrict host range by ETI activation. The manuscript by Schwartz and colleagues thus illustrates the potential of large-scale pathogenomics in understanding pathogen evolution and disease emergence and offers perspectives to design durable resistance against bacterial spot in tomato and pepper. Such approaches would be further reinforced by an improved sampling design, an increased number of sequenced genomes, and the use of complete genomes now accessible by SMRT sequencing (Pacific Biosciences). Such bioinformatics analyses should now be extended to pan genomes, plasmids, InDels, SNPs, recombinations, and use the pioneering approach developed by Guttman and colleagues (McCann et al., 2012) which followed evolutionary forces applied to individual P. syringae genes resulting in the identification of several novel PAMP elicitors.

Published
2016
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33. Vessel Tree Segmentation Via Front Propagation and Dynamic Anisotropic Riemannian Metric

Author

Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
Geodesic, Quantitative Biology::Tissues and Organs, Physics::Medical Physics, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Geometry, 010103 numerical & computational mathematics, 02 engineering and technology, 01 natural sciences, Quantitative Biology::Cell Behavior, Tree (descriptive set theory), Level set, [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Metric (mathematics), 0202 electrical engineering, electronic engineering, information engineering, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], 020201 artificial intelligence & image processing, Segmentation, Information geometry, 0101 mathematics, Filter (mathematics), Fast marching method, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

In this paper, we present a blood vessel segmentation method by front propagation and anisotropic Riemannian metric. The front is defined as the level set of the geodesic distance to a set of given initial source points, with respect to a dynamic anisotropic Riemannian metric. The boundaries of the vessels can be represented by the level set at the given distance threshold. The anisotropic Riemannian metric can be defined using a prior estimate of the vessel orientations and the local intensity difference values, where the vessel orientations are detected by the oriented flux filter. Experimental results demonstrate the proposed vessel detection method indeed outperforms the traditional vesselness based detection method.

Published
2016

34. Minimally Overlapping Combination of Geodesic Paths for Interactive Segmentation

Author

Cohen, Laurent D., Mille, Julien, Bougleux, Sébastien, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Extraction de Caractéristiques et Identification (imagine), Laboratoire d'InfoRmatique en Image et Systèmes d'information (LIRIS), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-École Centrale de Lyon (ECL), Université de Lyon-Université Lumière - Lyon 2 (UL2)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Université Lumière - Lyon 2 (UL2), Université de Lyon, Equipe Image - Laboratoire GREYC - UMR6072, Groupe de Recherche en Informatique, Image et Instrumentation de Caen (GREYC), Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Ingénieurs de Caen (ENSICAEN), Normandie Université (NU)-Normandie Université (NU)-Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Centre National de la Recherche Scientifique (CNRS)-École Nationale Supérieure d'Ingénieurs de Caen (ENSICAEN), and Normandie Université (NU)

Subjects
[INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2014

35. Vessel Tree Extraction using Radius-Lifted Keypoints Searching Scheme and AnisotropicFast Marching Method

Author

Chen, Da, Mirebeau, Jean-Marie, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2016

36. High-Quality Draft Genome Sequences of Two Xanthomonas Pathotype Strains Infecting Aroid Plants

Author

Sébastien Carrère, Mathieu Arlat, Stéphanie Bolot, Ralf Koebnik, Olivier Pruvost, Marie-Agnès Jacques, Isabelle Robène, Laurent D. Noël, Lionel Gagnevin, Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Laboratoire des interactions plantes micro-organismes (LIPM), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), and ANR Xanthomix

Subjects
0301 basic medicine, biology, [SDV]Life Sciences [q-bio], food and beverages, biology.organism_classification, Genome, Araceae, Xanthomonas campestris, Microbiology, Tissue specificity, 03 medical and health sciences, 030104 developmental biology, Xanthomonas, [SDE]Environmental Sciences, Genetics, Host plants, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Xanthomonas axonopodis, Prokaryotes, Adaptation, Molecular Biology, ComputingMilieux_MISCELLANEOUS, H20 - Maladies des plantes
Abstract

We present here the draft genome sequences of bacterial pathogens of the Araceae family, Xanthomonas axonopodis pv. dieffenbachiae LMG 695 and Xanthomonas campestris pv. syngonii LMG 9055, differing in host range. A comparison between genome sequences will help understand the mechanisms involved in tissue specificity and adaptation to host plants.

Published
2016
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37. Méthodes géodésiques pour la segmentation d'images médicales

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), and Fondation Sciences Math\'ematiques de Paris, IBM

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2015

38. The Fast Marching Algorithm for Image Segmentation

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

39. Automatic Segmentation of Natural Images with Anisotropic Fast Marching Algorithm and Geodesic Voting

Author

Cohen, Laurent D., Ghorpade, Vijaya, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

40. Segmentation of retinal images using geodesic methods

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

41. Interactive Retinal Vessel Centreline Extraction and Boundary Delineation Using Anisotropic Fast Marching and Intensities Consistency

Author

Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
Computer science, Property (programming), business.industry, Boundary (topology), Retinal Vessels, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], Consistency (statistics), [INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Path (graph theory), Metric (mathematics), Anisotropy, [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], Computer vision, Artificial intelligence, Stage (hydrology), business, Fast marching method, Algorithms, ComputingMilieux_MISCELLANEOUS
Abstract

In this paper, we propose a new interactive retinal vessels extraction method with anisotropic fast marching (AFM) based on the observation that one vessel may have the property of local intensities consistency. Our goal is to extract both the centrelines and boundaries between two given points. The proposed method consists of two stages: the first stage aims to finding the vessel centrelines using AFM and local intensities consistency roughly, while the second stage is to refine the centrelines from the previous stage using constrained Riemannian metric based AFM, and get the boundaries of the vessels simultaneously. Experiments show that results of our method outperform the classical minimal path method [1].

Published
2015

42. Automatic Tracking of Retinal Vessel Segments using Radius-Lifted Minimal Path Method

Author

Chen, Da, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

43. Segmentation of biomedical images using geodesic methods

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

44. Geodesic methods in Biomedical Image Analysis

Author

Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

45. Piecewise Geodesics for Vessel Centerline Extraction and Boundary Delineation with Application to Retina Segmentation

Author

Da Chen, Laurent D. Cohen, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)

Subjects
Hessian matrix, Geodesic, Boundary (topology), [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, Topology, 030218 nuclear medicine & medical imaging, 03 medical and health sciences, symbols.namesake, 0302 clinical medicine, Metric (mathematics), 0202 electrical engineering, electronic engineering, information engineering, Piecewise, symbols, 020201 artificial intelligence & image processing, Point (geometry), Segmentation, Algorithm, Fast marching method, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

Geodesic methods have been widely applied to image analysis [17]. In this paper, we propose an automatic anisotropic fast marching based geodesic method to extract the centrelines of retinal vessel segments and their boundaries. Our method is related to the geodesic or minimal path technique which is particularly efficient to extract a tubular shape, such as a blood vessel. The proposed method consists of a set of pairs of points. Each pair of points provides the Initial point and Target point for one geodesic. For each pair of Initial point and Target point, we calculate a special Riemannian metric with an additional Radius dimension to constrain the fast marching propagation so that our method can get a nice path without any shortcut. The given pairs of points can be easily obtained from a pre-segmented skeletonized image by any vessel detection filter like Hessian or Oriented Flux method. Experimental results demonstrate that our method can extract vessel segments at a finer scale, with increased accuracy.

Published
2015

46. 3D CTA Image Segmentation With A Generalized Cylinder-Based Tree Model

Author

Julien Mille, Laurent D. Cohen, Extraction de Caractéristiques et Identification (imagine), Laboratoire d'InfoRmatique en Image et Systèmes d'information (LIRIS), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-École Centrale de Lyon (ECL), Université de Lyon-Université Lumière - Lyon 2 (UL2)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Université Lumière - Lyon 2 (UL2), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), and Cohen, Laurent D.

Subjects
Pixel, business.industry, Homogeneity (statistics), Segment tree, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, Iterative reconstruction, Image segmentation, Interval tree, 030218 nuclear medicine & medical imaging, 03 medical and health sciences, [INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 0302 clinical medicine, 0202 electrical engineering, electronic engineering, information engineering, 020201 artificial intelligence & image processing, Segmentation, Computer vision, Artificial intelligence, business, Algorithm, Decision tree model, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

The proposed model is devoted to the segmentation and reconstruction of 3D vascular trees 1. We rely on an explicit representation of a deformable tree, where topological relationships between segments are modeled. This allows easy posterior interactions and quantitative analysis, such as measuring diameters or lengths of vessels. Starting from a unique user-provided root point, an initial tree is built with a technique relying on minimal paths. Within the constructed tree, the central curve of each segment and an associated variable radius function evolve in order to satisfy a region homogeneity criterion. We present results obtained on 3D CTA images of the carotid bifurcation.

Published
2010

47. Global Minimum for Curvature Penalized Minimal Path Method

Author

Da Chen, Laurent D. Cohen, Jean-Marie Mirebeau, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), and ANR-13-JS01-0003,NS-LBR,Schémas Numériques utilisant les Bases Réduites de Réseaux(2013)

Subjects
[INFO.INFO-TI]Computer Science [cs]/Image Processing [eess.IV], Path (graph theory), [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [MATH.MATH-AP]Mathematics [math]/Analysis of PDEs [math.AP], Curvature, Topology, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

International audience

Published
2015
Full Text
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48. Reconstruction de structures arborescentes par chemins minimaux et bande deformable

Author

Mille, Julien, Cohen, Laurent D., Extraction de Caractéristiques et Identification (imagine), Laboratoire d'InfoRmatique en Image et Systèmes d'information (LIRIS), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-École Centrale de Lyon (ECL), Université de Lyon-Université Lumière - Lyon 2 (UL2)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Université Lumière - Lyon 2 (UL2), CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), and Cohen, Laurent D.

Subjects
[INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2009

49. Deformable tree models for 2D and 3D branching structures extraction

Author

Laurent D. Cohen, Julien Mille, CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Laboratoire d'InfoRmatique en Image et Systèmes d'information (LIRIS), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-École Centrale de Lyon (ECL), Université de Lyon-Université Lumière - Lyon 2 (UL2), and Cohen, Laurent D.

Subjects
Mathematical optimization, business.industry, Segment tree, Feature extraction, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 02 engineering and technology, Image segmentation, Iterative reconstruction, Interval tree, 030218 nuclear medicine & medical imaging, Branching (linguistics), 03 medical and health sciences, Tree (data structure), [INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 0302 clinical medicine, 0202 electrical engineering, electronic engineering, information engineering, 020201 artificial intelligence & image processing, Segmentation, Artificial intelligence, business, Algorithm, ComputingMilieux_MISCELLANEOUS, Mathematics
Abstract

The proposed model is devoted to the segmentation and reconstruction of branching structures, like vascular trees. We rely on an explicit representation of a deformable tree, where topological relationships between segments are modeled. This allows easy posterior interactions and quantitative analysis, such as measuring diameters or lengths of vessels. Starting from a unique user-provided root point, an initial tree is built with a technique relying on minimal paths. Within the constructed tree, the central curve of each segment and an associated variable radius function evolve in order to satisfy a region homogeneity criterion.

Published
2009

50. Geodesically linked active contours: evolution strategy based on minimal paths

Author

Laurent D. Cohen, Julien Mille, Cohen, Laurent D., CEntre de REcherches en MAthématiques de la DEcision (CEREMADE), Centre National de la Recherche Scientifique (CNRS)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), Extraction de Caractéristiques et Identification (imagine), Laboratoire d'InfoRmatique en Image et Systèmes d'information (LIRIS), Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-École Centrale de Lyon (ECL), Université de Lyon-Université Lumière - Lyon 2 (UL2)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), and Université de Lyon-Université Lumière - Lyon 2 (UL2)

Subjects
Active contour model, Geodesic, ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION, [INFO.INFO-CV]Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 020207 software engineering, 02 engineering and technology, Topology, Maxima and minima, [INFO.INFO-CV] Computer Science [cs]/Computer Vision and Pattern Recognition [cs.CV], 0202 electrical engineering, electronic engineering, information engineering, Piecewise, 020201 artificial intelligence & image processing, Greedy algorithm, Evolution strategy, Gradient descent, ComputingMilieux_MISCELLANEOUS, Mathematics, Energy functional
Abstract

The proposed method is related to parametric and geodesic active contours as well as minimal paths, in the context of image segmentation. Our geodesically linked active contour model consists in a set of vertices connected by paths of minimal cost. This makes up a closed piecewise defined curve, over which an edge or region energy functional is formulated. The greedy algorithm is used to move vertices towards a configuration minimizing the energy functional. This evolution technique ensures lower sensitivity to erroneous local minima than usual gradient descent of the energy. Our method intends to take advantage of explicit active contours, minimal paths and greedy evolution techniques.

Published
2009

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