seanoe:110078 Zaccomer Hugo CNRS, Laboratoire d’Océanographie de Villefranche (LOV), Sorbonne Université, Villefranche-sur-Mer, France 2026-01-16 ISO 19115:2003/19139 1.0 PlanktoScope_reference : plankton images captured with the PlanktoScope 2025-12-15 2026-01-16 Zaccomer Hugo, Biteye Amadou, Caudan Corentin, Finet Thomas, Leblanc Karine, Le Bris Caroline, Le Gall Florence, Legeay Erwan, Marques Virginie, Moirand Laurine, Oddone Anna, Persat Romain, Portefin Emilie, Rigaut-Jalabert Fabienne, Thueux Manon, de Vargas Colomban, Vigneron Mathilde, Vogt Meike, Weymiens Lucien, Lombard Fabien (2025). PlanktoScope_reference : plankton images captured with the PlanktoScope. SEANOE. https://doi.org/10.17882/110078 Plankton was imaged with the PlanktoScope in different oceanic regions using different nets and protocol of conservation. This dataset aims to serve as reference for taxonomic identification with the PlanktoScope across 256 plankton taxa from 20µm to 300µm. Reference dataset can also serve as learning set for prediction in Ecotaxa (https://ecotaxa.obs-vlfr.fr/prj/15535).  The full images were processed and segmented with the PlanktoScope around each individual. A set of associated features were measured on the objects with skimage.measure. All objects were classified into 256 different classes using the web application EcoTaxa (http://ecotaxa.obs-vlfr.fr). The following dataset corresponds to the 169, 149 objects and their calculated features. The different files provide information about the features of the objects, their taxonomic identification as well as the raw images.   taxa.csv.gz   Table of the classification of each object in the dataset, with columns: - object_id: unique object identifier in EcoTaxa. - annotation_category: taxonomic name corresponding to the last level of hierarchy - annotation_hierarchy: taxonomic lineage to the category  - set: class of the image corresponding to the taxon  - img_file_name: local path of the image corresponding to the taxon, named according to the object id   features_native.csv.gz   Table of morphological features computed by PlanktoScope. All features are computed on the object only, not the background. All area/length measures are in pixels.    - object_id: unique object identifier in Ecotaxa   And 33 features:   - width: width of the smallest rectangle enclosing the object (pixel) - height: height of the smallest rectangle enclosing the object (pixel) - bx: X coordinates of the top left point of the smallest rectangle enclosing the object (pixel) - by: Y coordinates of the top left point of the smallest rectangle enclosing the object (pixel) - circ.: circularity of the object ((4∗π ∗Area)/Perim^2) [0-1] - area_exc: Surface area of the object excluding holes (pixel2) - area: Surface area of the object (pixel2) - %area: Percentage of object’s surface area that is comprised of holes - major: Length of the primary axis of the best fitting ellipse for the object (pixel) - minor: Length of the secondary axis of the best fitting ellipse for the object (pixel) - y: Y position of the center of gravity of the object (pixel) - x: X position of the center of gravity of the object (pixel) - convex_area: The area of the smallest polygon within which all points in the object fit (pixel2) - perim.: The length of the outside boundary of the object (pixel) - elongation: elongation index (major/minor)  - perimareaexc: index of the relative complexity of the perimeter (perim/area_exc) - perimmajor: Index of the relative complexity of the perimeter (perim/major) - circex: Circularity of object excluding white pixels ((4 ∗ π ∗ Area_exc)/perim 2) - angle: Angle between the primary axis and a line parallel to the x-axis of the image - bounding_box_area: Area of the smallest box containing the object (pixel2) - eccentricity: Eccentricity of the ellipse that has the same second-moments as the region. Ratio of the focal distance of the ellipse over the major axis length [0-1] - equivalent_diameter: The diameter of a circle with the same area as the object (pixel) - euler_number: Euler characteristic of the set of non-zero pixels. Computed as number of connected components subtracted by number of holes - extent: Ratio of pixels in the object to pixels in the total bounding box - local_centroid_col: Horizontal coordinate of the center of mass of the object (pixel) - local_centroid_row: Vertical coordinate of the center of mass of the object (pixel) - solidity: Ratio of pixels in the object to pixels of the convex hull image (area / convex_area) - meanhue: Mean base color of the object in hue scale (0-360) - meansaturation: Mean saturation of the object [0-100] - meanvalue: Mean brightness of the object [0-100] - stdhue: Standard deviation of base color - stdsaturation: Standard deviation of saturation  - stdvalue: Standard deviation of brightness   inventory.tsv Tree view of the taxonomy and number of images in each taxon, displayed as text. With columns : - annotation_hierarchy: taxonomic lineage - annotation_category: name of the taxon  - 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 object_id and sorted in subdirectories according to their taxon. <p>Data collection and processing was supported by the recurrent funding and facilities of the Laboratoire d’Océanographie de Villefranche-sur-Mer, Institut de la Mer de Villefranche sur Mer, as well as the European Union (BIOcean5D; grant no. 101059915), the mission Bougainville programme supported by l'Institut de l'Océan de l'Alliance Sorbonne Université and Plankton Planet (contribution #5), the French National programme Lefe/EC2CO, the project VERTIS, the campaign GreenFjord 2024 and APERO 2023 (<a href="https://doi.org/10.17600/18000666">10.17600/18000666</a>), MOOSE-GE 2022 (<a href="https://doi.org/10.17600/18001854">10.17600/18001854</a>) and the AtlantECO project (Union’s Horizon 2020 Research and Innovation programme “Atlantic Ecosystems Assessment, Forecasting and Sustainability”; grant no. 862923).&nbsp;</p><p>Views and opinions expressed are those of the authors only and do not necessarily reflect the views and opinions of the European Union. Neither the European Union nor the granting authority can be held responsible for them.&nbsp;</p> Zaccomer Hugo CNRS, Laboratoire d’Océanographie de Villefranche (LOV), Sorbonne Université, Villefranche-sur-Mer, France Biteye Amadou IRD, Univ Brest, Ifremer, CNRS, LEMAR, 29280, Plouzané, France Caudan Corentin Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Finet Thomas School of Environmental Sciences, University of East Anglia, Norwich, NR4 7TJ, UK Leblanc Karine Aix‐Marseille Université, Université de Toulon, CNRS, IRD, MIO UM110, Marseille, France Le Bris Caroline Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Le Gall Florence Sorbonne Université, CNRS, UMR7144 AD2M, ECOMAP, Station Biologique de Roscoff, 29680 Roscoff, France Legeay Erwan Sorbonne Université, CNRS, UMR7144 AD2M, ECOMAP, Station Biologique de Roscoff, 29680 Roscoff, France Marques Virginie Unit of Land Change Science, Swiss Federal Research Institute WSL, Birmensdorf, Switzerland Ecosystem and Landscape Evolution, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zurich, Switzerland Moirand Laurine Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Oddone Anna Plankton Planet Non-Governmental Organization (NGO), Station Biologique de Roscoff, 29680 Roscoff, France Persat Romain Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Portefin Emilie Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Rigaut-Jalabert Fabienne Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680 Roscoff, France Thueux Manon Sorbonne Université, CNRS, Laboratoire d’Écogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, France de Vargas Colomban Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022 Tara GOSEE, F-75016 Paris, France Vigneron Mathilde MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France Vogt Meike Environmental Physics, Institute of Biogeochemistry and Pollutant Dynamics, ETH Zürich, 8092 Zürich, Switzerland Weymiens Lucien Volontaire Officier Aspirant de la Marine Nationale, France Institut de l'Océan de l'Alliance Sorbonne Université, Sorbonne Université, 75005 Paris, France Lombard Fabien CNRS, Laboratoire d’Océanographie de Villefranche (LOV), Sorbonne Université, Villefranche-sur-Mer, France Research Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022 Tara GOSEE, F-75016 Paris, France SEANOE https://www.seanoe.org/data/00989/110078/illustration.jpg plankton Planktoscope image 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-NC (Creative Commons - Attribution, No commercial usage) <p>While all identifications have been reviewed by at least one human operator, we cannot fully guarantee the correctness of each of the &gt;180k identifications, a few mistakes might remain.</p> oceans -179.2284 179.6641 -49.5396 61.1752 2022-10-16 2025-05-28 TAR https://www.seanoe.org/data/00989/110078/data/124113.tar WWW:DOWNLOAD-1.0-link--download Processed data Planktoscope_reference - 1 GB https://doi.org/10.17882/110078 WWW:LINK-1.0-http--metadata-URL DOI of the product https://www.seanoe.org/data/00989/110078/ rel-canonical Seanoe PlanktoScope :  Pollina T, Larson AG, Lombard F, Li H, Le Guen D, Colin S, de Vargas C and Prakash M (2022) PlanktoScope: Affordable Modular Quantitative Imaging Platform for Citizen Oceanography. Front. Mar. Sci. 9:949428. doi: 10.3389/fmars.2022.949428