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328 results on '"Collin, Antoine"'

1. An integrated cell atlas of the lung in health and disease

Author

Sikkema, Lisa, Ramírez-Suástegui, Ciro, Strobl, Daniel C, Gillett, Tessa E, Zappia, Luke, Madissoon, Elo, Markov, Nikolay S, Zaragosi, Laure-Emmanuelle, Ji, Yuge, Ansari, Meshal, Arguel, Marie-Jeanne, Apperloo, Leonie, Banchero, Martin, Bécavin, Christophe, Berg, Marijn, Chichelnitskiy, Evgeny, Chung, Mei-i, Collin, Antoine, Gay, Aurore CA, Gote-Schniering, Janine, Hooshiar Kashani, Baharak, Inecik, Kemal, Jain, Manu, Kapellos, Theodore S, Kole, Tessa M, Leroy, Sylvie, Mayr, Christoph H, Oliver, Amanda J, von Papen, Michael, Peter, Lance, Taylor, Chase J, Walzthoeni, Thomas, Xu, Chuan, Bui, Linh T, De Donno, Carlo, Dony, Leander, Faiz, Alen, Guo, Minzhe, Gutierrez, Austin J, Heumos, Lukas, Huang, Ni, Ibarra, Ignacio L, Jackson, Nathan D, Kadur Lakshminarasimha Murthy, Preetish, Lotfollahi, Mohammad, Tabib, Tracy, Talavera-López, Carlos, Travaglini, Kyle J, Wilbrey-Clark, Anna, Worlock, Kaylee B, Yoshida, Masahiro, van den Berge, Maarten, Bossé, Yohan, Desai, Tushar J, Eickelberg, Oliver, Kaminski, Naftali, Krasnow, Mark A, Lafyatis, Robert, Nikolic, Marko Z, Powell, Joseph E, Rajagopal, Jayaraj, Rojas, Mauricio, Rozenblatt-Rosen, Orit, Seibold, Max A, Sheppard, Dean, Shepherd, Douglas P, Sin, Don D, Timens, Wim, Tsankov, Alexander M, Whitsett, Jeffrey, Xu, Yan, Banovich, Nicholas E, Barbry, Pascal, Duong, Thu Elizabeth, Falk, Christine S, Meyer, Kerstin B, Kropski, Jonathan A, Pe’er, Dana, Schiller, Herbert B, Tata, Purushothama Rao, Schultze, Joachim L, Teichmann, Sara A, Misharin, Alexander V, Nawijn, Martijn C, Luecken, Malte D, and Theis, Fabian J

Subjects
Biomedical and Clinical Sciences, Health Sciences, Lung, Genetics, 2.1 Biological and endogenous factors, 1.1 Normal biological development and functioning, Generic health relevance, Respiratory, Good Health and Well Being, Humans, COVID-19, Pulmonary Fibrosis, Lung Neoplasms, Macrophages, Lung Biological Network Consortium, Medical and Health Sciences, Immunology, Biomedical and clinical sciences, Health sciences
Abstract

Single-cell technologies have transformed our understanding of human tissues. Yet, studies typically capture only a limited number of donors and disagree on cell type definitions. Integrating many single-cell datasets can address these limitations of individual studies and capture the variability present in the population. Here we present the integrated Human Lung Cell Atlas (HLCA), combining 49 datasets of the human respiratory system into a single atlas spanning over 2.4 million cells from 486 individuals. The HLCA presents a consensus cell type re-annotation with matching marker genes, including annotations of rare and previously undescribed cell types. Leveraging the number and diversity of individuals in the HLCA, we identify gene modules that are associated with demographic covariates such as age, sex and body mass index, as well as gene modules changing expression along the proximal-to-distal axis of the bronchial tree. Mapping new data to the HLCA enables rapid data annotation and interpretation. Using the HLCA as a reference for the study of disease, we identify shared cell states across multiple lung diseases, including SPP1+ profibrotic monocyte-derived macrophages in COVID-19, pulmonary fibrosis and lung carcinoma. Overall, the HLCA serves as an example for the development and use of large-scale, cross-dataset organ atlases within the Human Cell Atlas.

Published
2023

23. Investigating the Spectral Anomaly with Different Reactor Antineutrino Experiments

Author

Buck, Christian, Collin, Antoine P., Haser, Julia, and Lindner, Manfred

Subjects
High Energy Physics - Experiment, Nuclear Experiment, Physics - Instrumentation and Detectors
Abstract

The spectral shape of reactor antineutrinos measured in recent experiments shows anomalies in comparison to neutrino reference spectra. New precision measurements of the reactor neutrino spectra as well as more complete input in nuclear data bases are needed to resolve the observed discrepancies between models and experimental results. This article proposes the combination of experiments at reactors which are highly enriched in ${}^{235}$U with commercial reactors with typically lower enrichment to gain new insights into the origin of the anomalous neutrino spectrum. The presented method clarifies, if the spectral anomaly is either solely or not at all related to the predicted ${}^{235}$U spectrum. Considering the current improvements of the energy scale uncertainty of present-day experiments, a significance of three sigma and above can be reached. As an example, we discuss the option of a direct comparison of the measured shape in the currently running Double Chooz near detector and the upcoming Stereo experiment. A quantitative feasibility study emphasizes that a precise understanding of the energy scale systematics is a crucial prerequisite in recent and next generation experiments investigating the spectral anomaly.

Published
2015
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25. Simulating social-ecological systems: the Island Digital Ecosystem Avatars (IDEA) consortium

Author

Davies, Neil, Field, Dawn, Gavaghan, David, Holbrook, Sally J, Planes, Serge, Troyer, Matthias, Bonsall, Michael, Claudet, Joachim, Roderick, George, Schmitt, Russell J, Zettler, Linda Amaral, Berteaux, Veronique, Bossin, Herve C, Cabasse, Charlotte, Collin, Antoine, Deck, John, Dell, Tony, Dunne, Jennifer, Gates, Ruth, Harfoot, Mike, Hench, James L, Hopuare, Marania, Kirch, Patrick, Kotoulas, Georgios, Kosenkov, Alex, Kusenko, Alex, Leichter, James J, Lenihan, Hunter, Magoulas, Antonios, Martinez, Neo, Meyer, Chris, Stoll, Benoit, Swalla, Billie, Tartakovsky, Daniel M, Murphy, Hinano Teavai, Turyshev, Slava, Valdvinos, Fernanda, Williams, Rich, and Wood, Spencer

Subjects
BRII recipient: Davies
Abstract

Systems biology promises to revolutionize medicine, yet human wellbeing is also inherently linked to healthy societies and environments (sustainability). The IDEA Consortium is a systems ecology open science initiative to conduct the basic scientific research needed to build use-oriented simulations (avatars) of entire social-ecological systems. Islands are the most scientifically tractable places for these studies and we begin with one of the best known: Moorea, French Polynesia. The Moorea IDEA will be a sustainability simulator modeling links and feedbacks between climate, environment, biodiversity, and human activities across a coupled marine–terrestrial landscape. As a model system, the resulting knowledge and tools will improve our ability to predict human and natural change on Moorea and elsewhere at scales relevant to management/conservation actions.

Published
2016

29. Very high resolution mapping of coral reef state using airborne bathymetric LiDAR surface-intensity and drone imagery

Author

Collin, Antoine, primary, Ramambason, Camille, additional, Pastol, Yves, additional, Casella, Elisa, additional, Rovere, Alessio, additional, Thiault, Lauric, additional, Espiau, Benoît, additional, Siu, Gilles, additional, Lerouvreur, Franck, additional, Nakamura, Nao, additional, Hench, James L., additional, Schmitt, Russell J., additional, Holbrook, Sally J., additional, Troyer, Matthias, additional, and Davies, Neil, additional

Published
2021
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32. Comment on Phys. Rev. Lett. 108, 191802 (2012): 'Observation of Reactor Electron Antineutrino Disappearance in the RENO Experiment'

Author

Lasserre, Thierry, Mention, Guillaume, Cribier, Michel, Collin, Antoine, Durand, Vincent, Fischer, Vincent, Gaffiot, Jonathan, Lhuillier, David, Letourneau, Alain, and Vivier, Matthieu

Subjects
High Energy Physics - Experiment, High Energy Physics - Phenomenology
Abstract

The RENO experiment recently reported the disappearance of reactor electron antineutrinos consistent with neutrino oscillations, with a significance of 4.9 standard deviations. The published ratio of observed to expected number of antineutrinos in the far detector is R=0.920 +-0.009(stat.) +-0.014(syst.) and corresponds to sin^2 2theta13 = 0.113 +-0.013(stat.) +-0.019(syst), using a rate-only analysis. In this letter we reanalyze the data and we find a ratio R=0.903 +-0.01(stat.), leading to sin^2 2theta13 = 0.135. Moreover we show that the sin^2 2theta13 measurement still depend of the prompt high energy bound beyond 4 MeV, contrarily to the expectation based on neutrino oscillation.

Published
2012

41. List of contributors

Author

Abernethy, C., primary, Acoba, T., additional, Alvarez, Belinda, additional, Amado Filho, Gilberto M., additional, Amblas, D., additional, Angeletti, Lorenzo, additional, Archer, S.K., additional, Aschoff, John, additional, Auster, Peter J., additional, Avena, Paloma P., additional, Babb, Ivar, additional, Bahia, Ricardo, additional, Baker, Elaine K., additional, Baker, Matthew, additional, Bakkeplass, Kjell, additional, Båmstedt, Ulf, additional, Barrie, J. Vaughn, additional, Barymova, A.A., additional, Bastos, Alex C., additional, Bell, Trevor, additional, Ben, Radford, additional, Boni, Geandré C., additional, Boswarva, K.L., additional, Brandão, Simone Nunes, additional, Brizzolara, Jennifer L., additional, Brown, Craig J., additional, Brown, Tanya M, additional, Budanov, Leonid, additional, Buhl-Mortensen, Lene, additional, Buhl-Mortensen, Pål, additional, Burgos, Julian M., additional, Burke, L.A., additional, Calvert, Jay, additional, Canals, M., additional, Carpenter, Mallory, additional, Carroll, Andrew, additional, Chadi, Deena, additional, Church, Ian, additional, Clark, Malcolm R., additional, Coffin, Millard F., additional, Collin, Antoine, additional, Conlon, Suzanne, additional, Conroy, Christian W., additional, Conway, Kim W., additional, Curtis, Brittany, additional, da Silva, André Giskard Aquino, additional, da Silva, Carla Maria Menegola, additional, da Silva, João Paulo Ferreira, additional, Davies, P., additional, De Lauro, M., additional, de Oliveira, Renato Guimarães, additional, de Oliveira Batista, Diêgo, additional, Desnos, Yves-Louis, additional, Devillers, Rodolphe, additional, Di Stefano, Floriana, additional, Di Stefano, Massimo, additional, Dijkstra, J.A., additional, Dohner, Stephanie M., additional, Domack, Eugene W., additional, Dominguez, José M.L., additional, Dominguez, José Maria Landim, additional, Dove, D., additional, Dunham, A., additional, d’Acremont, Elia, additional, D’Angelo, Silvana, additional, Edinger, Evan, additional, Eichler, P.B., additional, Eichler, Patrícia Pinheiro Beck, additional, Esposito, E., additional, Farias, Carlos, additional, Farrell, Eugene, additional, Fernandez, Rodrigo, additional, Fernández-Salas, Luis M., additional, Ferreira, Beatrice P., additional, Ferreira, Lucas C., additional, Fiorentino, Andrea, additional, Foglini, Federica, additional, Fontes, Vanessa C., additional, Foulsham, E., additional, Fox, C., additional, Fox, Jodi M., additional, Fraile-Nuez, Eugenio, additional, Gábor, Lukáš, additional, Gallardo-Núñez, Marina, additional, Galparsoro, Ibon, additional, Galvez, Daphnie, additional, Gardner, Jonathan, additional, Garmendia, Joxe Mikel, additional, Geange, Shane, additional, Glasby, Chris, additional, Glenner, Henrik, additional, Gomes, M.P., additional, Gomes, Moab Praxedes, additional, Gontz, Allen M., additional, González-Dávila, Melchor, additional, González-Porto, Marcos, additional, Gràcia, Eulàlia, additional, Grande, Valentina, additional, Grasty, Sarah E., additional, Gray, John W., additional, Greene, H. Gary, additional, Grinyó, Jordi, additional, Grüss, A., additional, Guinan, J., additional, Günther, Carmen-Pia, additional, Hanslow, D., additional, Harris, Peter T., additional, Hass, H. Christian, additional, Häussermann, V., additional, Hill, Nicole, additional, Howe, J.A., additional, Howell, Kerry, additional, Ilich, Alex R., additional, Ingleton, T., additional, Isachenko, A.I., additional, Jamieson, Alan J., additional, Jordan, A., additional, Joshi, Siddhi, additional, Kaskela, Anu, additional, Kirchhoff, Stephane, additional, Koetz, Benjamin, additional, Kokorin, A.I., additional, Kotilainen, Aarno, additional, Kozlovskiy, V.V., additional, Kruss, Aleksandra, additional, Kuhn, Thomas, additional, Kung, R., additional, Lacharité, Myriam, additional, Laferriere, Alix, additional, Lafosse, Manfred, additional, Lamarche, Geoffroy, additional, Lapointe, Abby, additional, Laporte, Jean, additional, Lavoie, Caroline, additional, Leahy, Y., additional, Lecours, Vincent, additional, Leite, Marcos Daniel A., additional, Leite, Tatiana Silva, additional, Lemos, Ivan Cardoso, additional, Lettieri, Maria Teresa, additional, Leventer, Amy, additional, Linklater, M., additional, Lo Iacono, Claudio, additional, Longo, G.O., additional, López-González, Nieves, additional, Lozano, Pablo, additional, Lucieer, Vanessa, additional, Lyons, David, additional, Madricardo, Fantina, additional, Maida, Mauro, additional, Malik, M., additional, Martel, André, additional, Martinez Arbizu, Pedro, additional, Martin-Lauzer, François-Régis, additional, Masetti, G., additional, Mata, Dulce, additional, Mayer, Larry Alan, additional, McGonigle, Chris, additional, Mello, K., additional, Melo, Lizandra C., additional, Mikhaylyukova, P.G., additional, Miller, Douglas C., additional, Mokievsky, V.O., additional, Montereale-Gavazzi, Giacomo, additional, Moraes, Fernando C., additional, Moura, Rodrigo L., additional, Muaves, Lara Cristina, additional, Muñoz, Araceli, additional, Murawski, Steven A., additional, Muxika, Iñigo, additional, Naar, David F., additional, Narayanaswamy, B.E., additional, Nascimento Silva, L.L., additional, Neevin, Igor, additional, Neilson, J., additional, Nichol, Scott, additional, Nilsson, Martin, additional, Normandeau, Alexandre, additional, Nunes, Alina S., additional, Obando, R., additional, Óðinsson, Davíð Þór, additional, Ólafsdóttir, Steinunn H., additional, Oliveira, Natacha, additional, Orlova, Marina, additional, O’Brien, P.E., additional, O’Dowd, Leonie, additional, O’Sullivan, D., additional, Pallentin, Arne, additional, Palomino, Desirée, additional, Papenmeier, Svenja, additional, Penna, Shannon, additional, Perea, Hector, additional, Pesch, Roland, additional, Picard, Kim, additional, Pierdomenico, Martina, additional, Post, Alexandra L., additional, Prampolini, Mariacristina, additional, Propp, Claudia, additional, Przeslawski, Rachel, additional, Quaresma, Valéria S., additional, Rabaute, Alain, additional, Rayo, X., additional, Rebouças, Renata C., additional, Repkina, T.Yu., additional, Riddle, M.J., additional, Rodríguez, José Germán, additional, Romero, J., additional, Ross, R., additional, Rovira, D., additional, Rowden, Ashley A., additional, Rueda, José L., additional, Rühlemann, Carsten, additional, Russo, Giovanni Fulvio, additional, Ryabchuk, Daria, additional, Rybalko, A.E., additional, Sacchetti, F., additional, Sameoto, Jessica A., additional, Sánchez-Guillamón, Olga, additional, Santana-Casiano, J. Magdalena, additional, Schuchardt, Bastian, additional, Secchin, Nélio, additional, Sergeev, Alexander, additional, Shabalyn, N.V., additional, Shapiro, Aurélie, additional, Shaw, J., additional, Sigovini, Marco, additional, Smith, J., additional, Smith, J.R., additional, Smith, Stephen J., additional, Sotomayor-Garcia, Ana, additional, Sowers, D., additional, Stefaniak, Lauren M., additional, Stewart, Heather A., additional, Stockwell, Caitlin L., additional, Sukhacheva, Leontina, additional, Tappin, David R., additional, Taviani, Marco, additional, Teixeira, Luisa, additional, Terekhina, Ya.E., additional, Todd, Brian J., additional, Tokarev, M.Yu., additional, Toso, Carlotta, additional, Trembanis, Arthur C., additional, Uhlenkott, Katja, additional, Urra, Javier, additional, Varas, Diego, additional, Vázquez, Juan T., additional, Viana, Marina Gomes, additional, Vieira, Laura S., additional, Vila, Yolanda, additional, Vink, Annemiek, additional, Violante, C., additional, Violante, Crescenzo, additional, Viscasillas, Lourdes, additional, Vital, H., additional, Vital, Helenice, additional, Watling, Les, additional, Watson, Sally J., additional, Weijerman, M., additional, Whittaker, Joanne, additional, Ylla, J., additional, Zajac, Roman N., additional, Zeiler, Manfred, additional, and Zhamoida, Vladimir, additional

Published
2020
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44. Pléiades Neo-Derived Bathymetry in Coastal Temperate Waters: The Case Study of Bay of Saint-Malo †.

Author

Collin, Antoine, James, Dorothée, and Feunteun, Eric

Subjects
BATHYMETRY, RADIOMETRY, NEURAL circuitry, COASTAL wetlands, LIDAR
Abstract

Satellite-derived bathymetry is increasingly attracting stakeholders' attention tasked with remote and/or shallow depths, given its affordability compared to airborne lidar and waterborne sonar surveys. The 6-band 1.2 m Pléiades Neo (PNEO) multispectral imagery has not yet been evaluated for such a purpose. The contribution of the novel PNEO bands to the depth retrieval was assessed over unclear coastal seawaters (0.2 m−1 of vertical light attenuation in the bay of Saint-Malo, France). The relevance of the radiometric level was also tested: top-of-atmosphere (TOA) digital number (DN), TOA radiance, TOA reflectance, bottom-of-atmosphere (BOA) maritime-modeled reflectance, and BOA tropospheric-modeled reflectance. The lidar response, ranging from 0 to 20 m depth, was stratified by 90 random samples per bathymetric slice of 1 m. The model was based on an easy-to-transfer neural network (one hidden layer and three neurons). The best predictions, reaching R2test of 0.81, were equally obtained for the full PNEO dataset at TOA DN, radiance, and reflectance. For both BOA full-dataset products, the results were slightly less satisfactory: R2test of 0.75 (maritime) and 0.76 (tropospheric). [ABSTRACT FROM AUTHOR]

Published
2023
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45. The Use of Ultra-High Resolution UAV Lidar Infrared Intensity for Enhancing Coastal Cover Classification †.

Author

Collin, Antoine, James, Dorothée, Gallon, Régis, Poizot, Emmanuel, and Feunteun, Eric

Subjects
DRONE aircraft, LIDAR, DETECTORS, LASERS, HABITATS
Abstract

Coastal areas gather increasing hazards, exposures, and vulnerabilities in the context of anthropogenic changes. Understanding their spatial responses to acute and chronic drivers requires ultra-high spatial resolution that can only be achieved by UAV-based sensors. UAV lasergrammetry constitutes, to date, the best observation of the xyz variables in terms of resolution, precision, and accuracy, allowing coastal areas to be reliably mapped. However, the use of lidar reflectivity (or intensity) remains poorly examined for mapping purposes. The added value of the lidar-derived near-infrared (NIR) was estimated by comparing the classification results of nine coastal habitats based on the blue–green–red (BGR) passive and BGR-NIR passive–active datasets. A gain of 4.14% was found at the landscape level, while habitat-scaled improvements were highlighted for the "salt marsh" and "soil" habitats (4 and 4.56% for producer's accuracy, PA, and user's accuracy, UA; and 8.95 and 9.48% for PA and UA, respectively). [ABSTRACT FROM AUTHOR]

Published
2023
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46. Drone-Based Spatio-Temporal Assessment of a Seagras Meadow: Insights into Anthropogenic Pressure †.

Author

James, Dorothée, Collin, Antoine, and Bouet, Agathe

Subjects
DRONE aircraft, SEAGRASSES, MACHINE learning, ECOSYSTEM dynamics, FISHING, AQUATIC sports
Abstract

Zostera marina L. is a flowering plant of great ecological interest as a breeding, nursery, and feeding place for many species. However, its spatial location implies strong competition with human uses (boating, fishing, etc.). Regular monitoring at a very high spatial and temporal resolution by a drone has been initiated to study the spatio-temporal and ecological dynamics of the seagrass meadow. Three drone campaigns per year were carried out in 2021 and 2022, totaling six spatial models. A pixel-oriented classification was performed to determine the overall envelope and to analyze the fragmentation of the meadow, which is likely caused by anchorage. A yearly loss of 465.18 m2 was measured (envelope area) and a difference of 12.15 m2 was observed between 2021 and 2022 (fragmented envelope area). [ABSTRACT FROM AUTHOR]

Published
2023
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47. Coral reef fish communities of natural habitats and man-made coastal structures in Bora-Bora (French Polynesia)

Author

Gairin, Emma, Minier, Lana, Claverie, Thomas, Dromard, Charlotte R., Maueau, Tehani, Collin, Antoine, Frédérich, Bruno, Bertucci, Frederic, Lecchini, David, Gairin, Emma, Minier, Lana, Claverie, Thomas, Dromard, Charlotte R., Maueau, Tehani, Collin, Antoine, Frédérich, Bruno, Bertucci, Frederic, and Lecchini, David

Abstract

Coastal habitats have long been recognised to be nurseries and growing grounds for many marine organisms. Worldwide, coastal hardening and urbanisation are leading to the removal of natural ecosystems. The tropical island of Bora-Bora in the South Pacific has undergone extensive coastal changes, with the construction of seawalls along more than half of its coastline since the 1950s. The daytime and night-time juvenile and adult fish communities were surveyed with multiple temporal replicates on a range of lagoon and coastal habitats on Bora-Bora. Over 47% of all fish on coastal habitats were juveniles. Mangroves, traditionally viewed as nurseries, had a high daytime and night-time abundance of juveniles, but less than 1% of the coastline of Bora-Bora consists of mangroves. The manmade seawalls, which are the most common type of coastal habitat on the island, were associated with lower juvenile densities during the day and promoted the presence of predators. The comparison of coastal and lagoon sites also highlighted contrasting life history strategies depending on coral reef fish species: although many favour coastal habitats as juveniles, others do not undergo ontogenetic shifts and thus other habitats must be considered when designing management plans to protect juvenile fish. Overall, our surveys show the importance of natural coastal zones in the lifecycle of numerous coral reef fish species in the lagoon of Bora-Bora and highlight the potential long-term impacts of coastal hardening on fish communities.

Published
2023
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50. Classifications satellitaires RaDAR et optiques des récifs biogéniques intertidaux : Sentinel-1, -2 et Pléiades-1

Author

Gal, Olivia Le, Collin, Antoine, James, Dorothée, Dubois, Stanislas, École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL), Centre de Géo-Écologie Littorale (CGEL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Ministère de l'Education nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.), Laboratoire d'Excellence CORAIL (LabEX CORAIL), Institut de Recherche pour le Développement (IRD)-Université des Antilles et de la Guyane (UAG)-École des hautes études en sciences sociales (EHESS)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de La Réunion (UR)-Université de la Polynésie Française (UPF)-Université de la Nouvelle-Calédonie (UNC)-Institut d'écologie et environnement-Université des Antilles (UA), and Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)

Subjects
satellites, classification, [SDE]Environmental Sciences, hermelles
Abstract

International audience; Utilisation de la télédétection satellitaire multi-source RaDAR et optique à l'échelle paysagère: 1. Classifier la probabilité de présence des hermelles, 2. Quantifier la contribution des diverses bandes spectrales.

Published
2023

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