seanoe:101928 ROMAGNAN Jean-Baptiste DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Nantes, Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France. E-mail address: nina.grandremy@ifremer.fr Jean.Baptiste.Romagnan@ifremer.fr 2026-03-12 ISO 19115:2003/19139 1.0 ZooCAMNet : plankton images captured with the ZooCAM 2024-09 2026-03-12 Romagnan Jean-Baptiste, Panaïotis Thelma, Bourriau Paul, Danielou Marie-Madeleine, Doray Mathieu, Dupuy Christine, Forest Bertrand, Grandremy Nina, Huret Martin, Le Mestre Sophie, Nowaczyk Antoine, Petitgas Pierre, Pineau Philippe, Rouxel Justin, Tardivel Morgan, Irisson Jean-Olivier (2024). ZooCAMNet : plankton images captured with the ZooCAM. SEANOE. https://doi.org/10.17882/101928 Plankton was sampled with a Continuous Underway Fish Egg Sampler (CUFES, 315µm mesh size) at 4 m below the surface, and a WP2 net (200µm mesh size) from 100m to the surface, or 5 m above the sea floor to the surface when the depth was < 100 m, in the Bay of Biscay. The full images were processed with the ZooCAM software and the embedded Matrox Imaging Library (Colas et a., 2018) which generated regions of interest (ROIs) around each individual object and a set of features measured on the object. The same objects were re-processed to compute features with the scikit-image library http://scikit-image.org. The 1, 286, 590 resulting objects were sorted by a limited number of operators, following a common taxonomic guide, into 93 taxa, using the web application EcoTaxa http://ecotaxa.obs-vlfr.fr. For the purpose of training machine learning classifiers, the images in each class were split into training, validation, and test sets, with proportions 70%, 15% and 15%. The archive contains : taxa.csv.gz Table of the classification of each object in the dataset, with columns : - objid : unique object identifier in EcoTaxa (integer number). - taxon_level1 : taxonomic name corresponding to the level 1 classification - lineage_level1 : taxonomic lineage corresponding to the level 1 classification - taxon_level2 : name of the taxon corresponding to the level 2 classification  - plankton : if the object is a plankton or not (boolean) - set : class of the image corresponding to the taxon (train : training, val : validation, or test) - img_path : local path of the image corresponding to the taxon (of level 1), named according to the object id features_native.csv.gz Table of morphological features computed by ZooCAM. All features are computed on the object only, not the background. All area/length measures are in pixels. All grey levels are in encoded in 8 bits (0=black, 255=white). With columns : - area : object's surface - area_exc : object surface excluding white pixels - area_based_diameter : object's Area Based Diameter: 2 * (object_area/pi)^(1/2) - meangreyobjet : mean image grey level - modegreyobjet : modal object grey level - sigmagrey : object grey level standard deviation - mingrey : minimum object grey level - maxgrey : maximum object grey level - sumgrey : object grey level integrated density: object_mean*object_area - breadth : breadth of the object along the best fitting ellipsoid minor axis - length : breadth of the object along the best fitting ellipsoid majorr axis - elongation : elongation index: object_length/object_breadth - perim : object's perimeter - minferetdiam : minimum object's feret diameter - maxferetdiam : maximum object's feret diameter - meanferetdiam : average object's feret diameter - feretelongation : elongation index: object_maxferetdiam/object_minferetdiam - compactness : Isoperimetric quotient: the ration of the object's area to the area of a circle having the same perimeter - intercept0, intercept45 , intercept90, intercept135 : the number of times that a transition from background to foreground occurs a the angle 0ø, 45ø, 90ø and 135ø for the entire object - convexhullarea : area of the convex hull of the object - convexhullfillratio : ratio object_area/convexhullarea - convexperimeter : perimeter of the convex hull of the object - n_number_of_runs : number of horizontal strings of consecutive foreground pixels in the object - n_chained_pixels : number of chained pixels in the object - n_convex_hull_points : number of summits of the object's convex hull polygon - n_number_of_holes : number of holes (as closed white pixel area) in the object - roughness : measure of small scale variations of amplitude in the object's grey levels - rectangularity : ratio of the object's area over its best bounding rectangle's area - skewness : skewness of the object's grey level distribution - kurtosis : kurtosis of the object's grey level distribution - fractal_box : fractal dimension of the object's perimeter - hist25, hist50, hist75 : grey level value at quantile 0.25, 0.5 and 0.75 of the object's grey levels normalized cumulative histogram - valhist25, valhist50, valhist75 : sum of grey levels at quantile 0.25, 0.5 and 0.75 of the object's grey levels normalized cumulative histogram - nobj25, nobj50, nobj75 : number of objects after thresholding at the object_valhist25, object_valhist50 and object_valhist75 grey level - symetrieh :index of horizontal symmetry - symetriev : index of vertical symmetry - skelarea : area of the object skeleton - thick_r : maximum object's thickness/mean object's thickness - cdist : distance between the mass and the grey level object's centroids features_skimage.csv.gz Table of morphological features recomputed with skimage.measure.regionprops on the ROIs produced by ZooCAM. See http://scikit-image.org/docs/dev/api/skimage.measure.html#skimage.measure.regionprops for documentation. inventory.tsv Tree view of the taxonomy and number of images in each taxon, displayed as text. With columns : - lineage_level1 : taxonomic lineage corresponding to the level 1 classification - taxon_level1 : name of the taxon corresponding to the level 1 classification - n : number of objects in each taxon group map.png Map of the sampling locations, to give an idea of the diversity sampled in this dataset. imgs Directory containing images of each object, named according to the object id objid and sorted in subdirectories according to their taxon. The authors acknowledge receiving funding from the Ifremer DEFIPEL project France Filière Pêche projet d’avenir. NG acknowledges being funded by Region Pays de la Loire, FR and Ifremer. The authors wish to thank Jean-Yves Coail, Gérard Guyader and Patrick Berriet (Ifremer – REM-RDT-SIIM) for their contribution to the hardware assembly of the ZooCAM. The authors wish also to thank the many other students, technicians and scientists who participated in the sampling and samples management on board and on land, and the successive crews of the R/V Thalassa involved in the PELGAS cruises from 2016 to 2019. The assembly of the dataset was funded by Belmont Forum project WWWPIC. ROMAGNAN Jean-Baptiste DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Nantes, Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France. E-mail address: nina.grandremy@ifremer.fr Jean.Baptiste.Romagnan@ifremer.fr Panaïotis Thelma Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefanche, LOV, 06230 Villefranche-sur-mer, France BOURRIAU Paul DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Nantes, Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France. E-mail address: nina.grandremy@ifremer.fr DANIELOU Marie-Madeleine Unité DYNECO-PELAGOS, Laboratoire d’Ecologie Pélagique, Ifremer Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. DORAY Mathieu DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Nantes, Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France. E-mail address: nina.grandremy@ifremer.fr DUPUY Christine BIOFEEL, UMRi LIENSs, La Rochelle Université / CNRS, 2, rue Olympe de Gouges, 17000 La Rochelle, France. FOREST Bertrand Laboratoire Hydrodynamique Marine, Unité RDT, Ifremer Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. GRANDREMY Nina DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Nantes, Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France. E-mail address: nina.grandremy@ifremer.fr HURET Martin DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. LE MESTRE Sophie DECOD (Ecosystem Dynamics and Sustainability), IFREMER, INRAE, Institut Agro, Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. Nowaczyk Antoine UMR CNRS 5805 EPOC – OASU, Station Marine d'Arcachon, Université de Bordeaux, 2 Rue du Professeur Jolyet, 33120 Arcachon, France PETITGAS Pierre Departement Ressources Biologiques et Environnement, Ifremer Centre Atlantique - Rue de l'Ile d'Yeu - BP 21105 - 44311 Nantes Cedex 03, France Pineau Philippe BIOFEEL, UMRi LIENSs, La Rochelle Université / CNRS, 2, rue Olympe de Gouges, 17000 La Rochelle, France. ROUXEL Justin Laboratoire Détection, Capteurs et Mesures, Unité RDT, Ifremer Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. TARDIVEL Morgan Laboratoire Détection, Capteurs et Mesures, Unité RDT, Ifremer Centre Bretagne - ZI de la Pointe du Diable - CS 10070 - 29280 Plouzané, France. Irisson Jean-Olivier Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefanche, LOV, 06230 Villefranche-sur-mer, France SEANOE https://www.seanoe.org/data/00907/101928/illustration.gif plankton image ZooCAM WP2 CUFES Biological oceanography Biological oceanography SeaDataNet Parameter Disciplines 2025-07-29 geonetwork.thesaurus.external.parameter.NVS.P08 /Observational data/in-situ Type de jeux de donnée ODATIS 2025-12-09 geonetwork.thesaurus.local.theme.type_jeux_donnee CC-BY (Creative Commons - Attribution) While all identifications have been reviewed by at least one human operator, we cannot fully guarantee the correctness of each of the >1M identifications, a few mistakes might remain. Benchmark of plankton images classification: emphasizing features extraction over classifier complexity 2026 Copernicus GmbH Panaïotis Thelma Amblard Emma Boniface-Chang Guillaume Dulac-Arnold Gabriel Woodward Benjamin Irisson Jean-Olivier 10.5194/essd-18-945-2026 The ZooCAM, a new in-flow imaging system for fast onboard counting, sizing and classification of fish eggs and metazooplankton 2018 Pergamon-elsevier Science Ltd COLAS FLORENT TARDIVEL MORGAN PERCHOC JONATHAN LUNVEN MICHEL FOREST BERTRAND GUYADER GERARD DANIELOU MARIE-MADELEINE LE MESTRE SOPHIE BOURRIAU PAUL ANTAJAN ELVIRE SOURISSEAU MARC HURET MARTIN PETITGAS PIERRE ROMAGNAN JEAN-BAPTISTE 10.1016/j.pocean.2017.10.014 A continuous, underway fish egg sampler 1997 Wiley CHECKLEY JR DAVID M. ORTNER PETER B. SETTLE LAWRENCE R. CUMMINGS SHAILER R. 10.1046/j.1365-2419.1997.00030.x FlowCAMNet : plankton images captured with the FlowCAM 2024 SEANOE Jalabert Laetitia Signoret Guillaume Caray-Counil Louis Vilain Marion Martins Emmanuelle Lombard Fabien Picheral Marc Irisson Jean-Olivier 10.17882/101961 ISIISNet : plankton images captured with the ISIIS (In-situ Ichthyoplankton Imaging System) 2024 SEANOE Panaïotis Thelma Caray-Counil Louis Jalabert Laetitia Irisson Jean-Olivier 10.17882/101950 UVP6Net : plankton images captured with the UVP6 2024 SEANOE Picheral Marc Jalabert Laetitia Motreuil Solène Courchet Lucas Carray-Counil Louis Ricour Florian Panaiotis Thelma Petit Flavien Elineau Amanda 10.17882/101948 PELGAS Bay of Biscay ZooScan zooplankton Dataset (2004-2016) 2023 SEANOE Grandrémy Nina Bourriau Paul Daché Edwin Danielou Marie-Madeleine Doray Mathieu Dupuy Christine Huret Martin Jalabert Laetitia Le Mestre Sophie Nowaczyk Antoine Petitgas Pierre Pineau Philippe Raphalen Elio Romagnan Jean-Baptiste 10.17882/94052 PELGAS Bay of Biscay ZooCAM zooplankton Dataset (2016-2019) 2023 SEANOE Grandrémy Nina Bourriau Paul Danielou Marie-Madeleine Doray Mathieu Dupuy Christine Forest Bertrand Huret Martin Le Mestre Sophie Nowaczyk Antoine Petitgas Pierre Pineau Philippe Rouxel Justin Tardivel Morgan Romagnan Jean-Baptiste 10.17882/94040 oceans -9.78 -1.23 43.66 50.66 2016-05-01 2020-11-13 TAR https://www.seanoe.org/data/00907/101928/data/113094.tar WWW:DOWNLOAD-1.0-link--download Processed data ZooCAMNet - 4 GB https://doi.org/10.17882/101928 WWW:LINK-1.0-http--metadata-URL DOI of the product https://www.seanoe.org/data/00907/101928/ rel-canonical Seanoe Nets : WP2: 200µm diam 57cm, CUFES: 315 µm, 600l/min water intake flow (Checkley et al., 1997), ZooCAM https://archimer.ifremer.fr/doc/00407/51833/ Software :  ZooCAM software (Colas et al., 2018)