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Perrine Paul-Gilloteaux
50%
Libre accès
154
Documents
Affiliations actuelles
Identifiants chercheurs
- perrine-paul-gilloteaux
- 0000-0002-4822-165X
- IdRef : 236865714
- ResearcherId : L-8287-2018
- Arxiv : paulgilloteaux_p_1
- ResearcherId : http://www.researcherid.com/rid/L-8287-2018
Présentation
I'm a CNRS Research Engineer, specialized in computer vision and bio image analysis.
After my electrical engineering studies, with a computer vision option, I did my PhD with a company (Medtronic Surgical Navigation, Boulder USA) and the ViSages team (INRIA, INSERM, CNRS) under the supervision of Dr. Pierre Jannin.
I was working on the tracking of deformations of the brain during craniotomy in brain surgery, in order to relocate information from different exams of the patient , in particular indicated functional areas, such as language or motor area of the brain and to display them in the surgical microscope. For this, I was creating stereoscopic reconstruction from the surgical microscope binocular, and I developed a new method for the tracking of surface deformation, based on an hybrid approach of point cloud registration and of video tracking.
I did a first postdoc as experienced Researcher in a Marie-Curie network, ARIS\*ER to work on augmented reality in surgery, and in particular the segmentation of tumors in ultrasound based on wavelet analysis of the ultrasound raw signal.
I then got a post-doc position in Maynooth, Ireland (close to Dublin), in the Hamilton Institute which is an applied mathematics institute. I was in the Systems Biology group, where I've developed with my colleagues an intelligent fluorescent microscope, taking the decision of the area to image and of the frequency of acquisition, based on real time analysis of the image content (cell segmentation and cell tracking).
In 2010, I joined the CNRS as research Engineer in the PICT IBISA cell and tissue microscopy facility in Institut Curie, Paris, France. My job was to support the biologists in image analysis, by adapting existing sofwtare or developping new methods.
In June 2015, I've joined the [Structure Federative de Recherche in Health](https://sfrsante.univ-nantes.fr/) of Nantes (France), where I work for the facility, and on my own research activities
I am now leading R&D activities in multimodal image analysis, through the [ANR CROCOVAL](https://anrcrocoval.github.io/) , and heading [MicroPICell](https://micropicell.univ-nantes.fr/), a microscopy facility performing services and R& D in histology, photonic microscopy and image analysis and management. I am one of the co-funder of COST action [NEUBIAS](http://www.neubias.org), for which I lead the group creating [biii.eu](http://www.biii.eu) and [edam bio imaging](https://bioportal.bioontology.org/ontologies/EDAM-BIOIMAGING?p=classes) and is part of the core group managing the full network, and vice chair and the [COMULIS](https://www.comulis.eu/) COST action.
Domaines de recherche
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Correlative microscopies : image registration for clem and for deep learning What can bring error estimation ?Colloque Français d'Intelligence Artificielle en Imagerie Biomédicale, Instituts 3IA MIAI, 3IA Cote d'Azur et PRAIRIE, Mar 2023, Paris, France
Communication dans un congrès
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France Bio Imaging : setting up image data management solutions at the national levelBioImaging and the European Open Science Cloud, EOSC-Life, Apr 2023, Heidelberg, Germany
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Image analysis tools and applications for correlative microscopySéminaire de l'Institut de Génétique & Développement de Rennes, Apr 2023, Rennes, France
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Development of correlation software for Correlative cryo light Soft X-Ray Tomography : example of 3d correlative cryo-structured illumination fluorescence and soft x-ray microscopy to ellucidate reovirus intracellular release pathwayINSTRUCT Soft X-ray Tomography workshop, Sep 2023, Didcot, United Kingdom
Communication dans un congrès
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Correlative microscopies : comulisglobe and news from ec-clemFrance BioImaging CLEM day: What's new in multimodal imaging, Mar 2023, Paris, France
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Linking and analyzing correlative datasetsALL-HANDS NODES MEETINg&MORE, iNext DISCOVERY, Apr 2023, Heidelberg, Germany
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La tomographie par cohérence optique plein champ : un nouvel outil de microscopie optique dynamique pour l'analyse du système nerveux entériqueJFHOD, Mar 2022, Paris, France
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Image processing and analysis in clem : methods and pitfallsSymposium on recent developments in cellular electron microscopy, AVIESAN ITMO MOLECULAR AND STRUCTURAL BASIS OF LIFE SCIENCES, Mar 2022, Paris, France
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Correlative microscopies: image registration for CLEM and for Deep LearningCrick BioImage Analysis Symposium (CBIAS), Nov 2022, Londres (London), United Kingdom
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Méthodes et écueils du traitement des images issues de microscopie corrélative6eme rencontre des microscopistes clermontois, Igred et Inrae, Oct 2021, Clermont-Ferrand, France
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A FULL 3D CORRELATIVE IMAGING WORKFLOW: CHALLENGES IN COMPUTER VISIONIEEE ISBI 2021 (VIRTUAL)., Apr 2021, Nice, France
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A Registration Error Estimation Framework for Correlative Imaging2021 IEEE International Conference on Image Processing (ICIP), Sep 2021, Anchorage, United States. pp.131-135, ⟨10.1109/ICIP42928.2021.9506474⟩
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EcClemv2: A new version of a flexible software for correlative workflowsCOMULIS Conference, Sep 2021, Gothenburg, Sweden
Communication dans un congrès
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Leveraging Molecular and Cellular Fiducial Markers for Correlative Bio-ImagingQuantitative BioImaging, Jan 2020, Oxford, United Kingdom
Communication dans un congrès
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Cross-modal registration using point clouds and graph-matching in the context of correlative microscopiesiTWIST : international Traveling Workshop on Interactions between low-complexity data models and Sensing Techniques, Dec 2020, Nantes, France
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Le dorica castra des imagesNuit Blanche des Chercheurs, Feb 2020, Nantes, France
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French gastronomy and bio image analysis workflowsVirtual Analytical and Quantitative Microscopy, May 2020, Woods Hole, United States
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Quantification: extracting quantitative information from correlated multimodal datasetIMAGE PROCESSING FOR CORRELATED AND MULTIMODAL IMAGING TECHNIQUES, VIB Training, Oct 2020, Ghent, Belgium
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Interdisciplinarity in a (still short) carreer: living and contributing to the creation of a new research field in biomedical image informatics.Opening conference of Angers Summer schools, Jun 2019, Angers, France
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Automatic Registration of Correlative Microscopies with Error Assessment and Applications for the Optimization of Multimodal AcquisitionsSCANDEM 2019, Jun 2019, Gothenburg, Sweden
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Linking cell scales: methods and software for correlative imaging workflowsLa microscopie électronique pour les sciences du vivant. Journées Scientifiques de l'Université de Nantes, Jun 2019, Nantes, France
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RECALAGE EN MICROSCOPIES CORRÉLATIVES POUR LA CARACTÉRISATION PHYSIOPATHOLOGIQUE DE LA VALVULOPATHIE16eme colloque de la société Française des Microscopies, Jul 2019, Poitiers, France
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Introduction to transformations and registrationsHigh-Accuracy CLEM: Applications at Room Temperature and in cryo, Apr 2019, Heidelberg, Germany
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Advanced Image analysisAnalytical & Quantitative Light Microscopy, May 2019, Woods Hole, United States
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Introduction to Correlation Software in CLEMCorrelated Multimodal Imaging Conference, Nov 2019, Vienne, Austria
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NEUBIAS: BIOIMAGE ANALYSTS NETWORK TO SUPPORT LIFE SCIENTISTS THROUGH TRAINING, ONLINE TOOLS REPOSITORIES AND BENCHMARKING DEPLOYMENT FOR BIOIMAGE ANALYSIS WORKFLOWSFocus on Microscopy, Apr 2019, Londres, United Kingdom
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An in Vitro and in Silico Validation Study for PC MRI and Derived Bio‐markers31st Society for Magnetic Resonance Angiography conference (SMRA 2019), Aug 2019, Nantes, France
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Les bases de données images: limitations et aspirationsJournée partenaire industriel GDR IMABIO, Jun 2019, Paris, France
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Automatic registration for multidimensional correlative microscopies with error assessment and detections of deformationsInternational Microscopy Congress, Sep 2018, Sydney, Australia
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Constructing workflows in Bio Image AnalysisAnalytical & Quantitative Light Microscopy, May 2018, Woods Hole, United States
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Computer vision methods for multidimensional correlative microscopies: optimizing acquisitions using mathsColloqium: Future Microscopy and Analysis, Nov 2018, Ghent, Belgium
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COMULIS, a new network to bridge (pre) clinical imaging and correlative Light Electron microscopy. Focus on multidimensional registration softwareASCB-EMBO 2018, Dec 2018, San Diego, United States
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Bio-image DATA in Life Sciences Research Infrastructures. From SCRATCH to intelligent integrated solutionsStorage Day, Jan 2018, Paris, France
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Bio-Imagerie: mathématiques et informatique pour la compréhension du vivantImmersion Science, Mar 2018, Ile Tudy, France
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Computer vision methods for multidimensional correlative microscopiesJournées communes des GdR MIA et ImaBio "Microscopie et traitement d'image", Nov 2018, Strasbourg, France
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Gestion et analyse d’images à moyen débit : exemple en microscopie confocale et sur lames virtuellesQuand la bio-imagerie rencontre la bio-informatique : vers une intégration des données hétérogènes. Journée d'animation Biogenouest, Oct 2017, Rennes, France
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Flexible multidimensional registration software for correlative microscopies with refined accuracy mapping: eC-CLEM easy Cell Correlative Light to Electron MicroscopySymposium and Workshop on correlative light, electron, and X-ray microscopy, Mar 2017, Harwell, United Kingdom
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Introduction to transformations and registrationsHigh-Accuracy CLEM: Applications at Room Temperature and in cryo, Dec 2017, Heidelberg, Germany
Communication dans un congrès
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Filtrage spatio-temporel en IRM de flux sanguin 4DXXVIème colloque GRETSI sur le Traitement du Signal et des Images, Sep 2017, Juan-Les-Pins, France
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Challenges in image correlation for CLEM (and partial solutions)Crick Electron Microscopy Opening Symposium, Jul 2017, Londres, United Kingdom
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Le recalage d'image sous ICYJournée Thématique conjointe sur le repositionnement et la relocalisation/recalage, Nov 2017, Orléans, France
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Besoins en bio-informatique liés àl’activité de l’infrastructure nationale France Bio ImagingAssemblée générale de l'INBS Institut Français de Bioinformatique, Jan 2017, paris, France
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Le numérique dans les biotechnologies: exemple de la bio imagerieTechnoConférence Pole Image et Réseau #17, Jun 2016, Nantes, France
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Multiscale and multidimensional Image registration for CLEM : techniques and pitfallsHigh-Accuracy Correlated Light and Electron Microscopy: Applications at Room Temperature and in Cryo, Apr 2016, Heildelberg, Germany
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Ec-CLEM: an open source plugin for CLEM image and volume registrationEMBL Workshop: From 3D Light to 3D Electron Microscopy, Mar 2016, Heidelberg, Germany
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Cycle de vie des images en microscopie : de l’acquisition au partage des donnéesLa diversité tumorale à travers les plateformes technologiques franciliennes, Jan 2016, Paris, France
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Gestion du cycle de vie des images en microscopie pour la biologie: Extraction de connaissances à partir d’une base de données imagesSéminaire de l'INRA OPEN DATA, Dec 2015, Montpellier, France
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Methodes de traitement et analyse d’images comme aide à la quantification des biomarqueurs en imagerie: de l’in vitro à la cliniqueAteliers du DHU2020, Jun 2015, Nantes, France
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Développement et déploiement d’une base de données image commune : bilanImagerie et cancers : optique et imagerie multiphotonique, Sep 2014, Paris, France
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Computational modeling of the consequences of embryonic neurogenesis disordersMolecular Biology of The Cell. ASCB, 2013, Nouvelle-Orleans, United States. pp.3775-3775, ⟨10.1091/mbc.E13-10-0584⟩
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Correlation and variational approaches for motion and diffusion estimation in fluorescence imagingEuropean Light Microscopy Initiative (ELMI'13), May 2013, Arcachon, France
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Robust parametric stabilization of moving cells with intensity correction in light microscopy image sequencesISBI - IEEE International Symposium on Biomedical Imaging, Apr 2013, San-Francisco, United States. pp.468-471, ⟨10.1109/ISBI.2013.6556513⟩
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Correlation and variational approaches for motion and diffusion estimation in fluorescence imagingEUSIPCO 2013 - European Signal Processing Conference, Sep 2013, Marrakech, Morocco. pp.1-5
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Aggregation of patch-based estimations for illumination-invariant optical flow in live cell imagingISBI - IEEE International Symposium on Biomedical Imaging, Apr 2013, San-Francisco, United States. pp.660-663, ⟨10.1109/ISBI.2013.6556561⟩
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Image Data Base on a microscopy facility: Presentation and use for remote collaborationsNouvelles méthodologies en imagerie du vivant, Dec 2012, Lyon, France
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Developpement des methodes de correlation d images pour l analyse de la mobilite moleculaire dans un systeme biologique complexe spatialement et temporellementOPTDIAG, May 2012, Paris, France
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Study of the 3D repartition of vesicles normalized by the distance to the cell peripheryFocus On Microscopy, Apr 2011, Konstanz, Germany
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Automatic quality assessment for fluorescence microscopy images2008 8th IEEE International Conference on Bioinformatics and BioEngineering (BIBE), Oct 2008, Athens, France. pp.1-6, ⟨10.1109/BIBE.2008.4696665⟩
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Image Guidance in neurosurgical procedures, the "VISAGES" point of view4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Apr 2007, Arlington, United States. pp.1056-1059, ⟨10.1109/ISBI.2007.357037⟩
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A surface registration approach for video-based analysis of intraoperative brain surface deformationsOct 2006, pp.0
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Knowledge modeling in image guided neurosurgery: application in understanding intra-operative brain shiftSPIE Medical Imaging 2006: Visualization, Image-Guided Procedures and Display, Mar 2006, San Diego, United States. ⟨10.1117/12.655752⟩
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Virtualité augmentée en neurochirurgie guidée par l'image2005, pp.99-104
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Performance Evaluation of a Stereoscopic Based 3D Surface Localiser for Image-Guided NeurosurgeryMICCAI, Sep 2004, Saint-Malo, France. pp.510-517, ⟨10.1007/978-3-540-30136-3_63⟩
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Computer-assisted analysis of multimodal image data—perspectives and conclusionImaging Modalities for Biological and Preclinical Research: A Compendium, Volume 2, IOP Publishing, 2021, ⟨10.1088/978-0-7503-3747-2ch30⟩
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Workflows and Components of Bioimage AnalysisBioimage Data Analysis Workflows. Learning Materials in Biosciences. Springer, Cham, pp.1-7, 2020, ⟨10.1007/978-3-030-22386-1_1⟩
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Resolving the Process of Clathrin Mediated Endocytosis Using Correlative Light and Electron Microscopy (CLEM)Kota Miura; Nataša Sladoje. Bioimage Data Analysis Workflows, Springer, pp.143-166, 2020, Learning Materials in Biosciences, 978-3-030-22385-4. ⟨10.1007/978-3-030-22386-1_6⟩
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Correlating Data from Imaging ModalitiesCorrelative Imaging: Focusing on the Future, 1, Wiley, 2019, ⟨10.1002/9781119086420.ch11⟩
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A Biologist-Friendly Method to Analyze Cross-Correlation Between Protrusion Dynamics and Membrane Recruitment of Actin RegulatorsMethods Mol Biol, pp.279-289, 2018
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Cell Polarity: Focal Adhesion and Actin Dynamics in Migrating CellsKota Miura. Bioimage Data Analysis, Wiley-VCH, pp.198-218, 2016, 978-3-527-80092-6
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Bioimage Analysis ToolsKota Miura. Bioimage Data Analysis, Wiley-VCH, 2016, 978-3-527-80092-6
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Quantitative Evaluation of Multicellular Movements in Drosophila EmbryoKota Miura. Bioimage Data Analysis, Wiley-VCH, 2016, 978-3-527-80092-6
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Quantitative analysis of flagellar proteins in Drosophila sperm tailsMethods in Cilia & Flagella, 127, Elsevier, pp.263-278, 2015, Methods in Cell Biology, ⟨10.1016/bs.mcb.2015.01.003⟩
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Microscopy control system and methodUnited States, Patent n° : US 2010/0251438 A1. 2010, https://patentimages.storage.googleapis.com/bb/3d/c1/00174666d137a7/US20100251438A1.pdf
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NEUBIAS WEBTOOL biii.eu A unique database of image processing, analysis tools and workflows for and by the bioimaging communityF1000Research NEUBIAS gateway, 2020, ⟨10.7490/f1000research.1117948.1⟩
Autre publication scientifique
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Organization and Teaching EMBL Course Bio Image Data ANalysis2017
Autre publication scientifique
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Organization and Teaching EMBL Course Bio Image Data Analysis2016
Autre publication scientifique
hal-02746656v1
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Organization and Teaching EMBL Course Bio Image Data Analysis2015
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Euro BioImaging Preparatory Phase II Project[0] Euro-Bioimaging. 2016
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Neurochirurgie guidée par l'image : visualisation mixte et quantification des déformations cérébrales peropératoires à l'aide de reconstructions stéréoscopiques de la surface corticaleVision par ordinateur et reconnaissance de formes [cs.CV]. Universite de Rennes 1, 2006. Français. ⟨NNT : ⟩
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