ZooScanNet: plankton images captured with the ZooScan
|Temporal extent||2009-09-07 -2017-07-19|
|Author(s)||Elineau Amanda1, Desnos Corinne1, Jalabert Laetitia1, Olivier Marion1, Romagnan Jean-Baptiste1, Costa Brandao Manoela1, Lombard Fabien1, Llopis Natalia1, Courboulès Justine1, Caray-Counil Louis1, Serranito Bruno1, Irisson Jean-Olivier1, Picheral Marc1, Gorsky Gaby1, Stemmann Lars1|
|Affiliation(s)||1 : Sorbonne Université, CNRS, Laboratoire d’Océanographie de Villefanche, LOV, 06230 Villefranche-sur-mer, France|
|Keyword(s)||plankton, image, ZooScan, WP2, Bongo, Juday-Bogorov, Régent|
Plankton was sampled with various nets, from bottom or 500m depth to the surface, in many oceans of the world. Samples were imaged with a ZooScan. The full images were processed with ZooProcess which generated regions of interest (ROIs) around each individual object and a set of associated features measured on the object (see Gorsky et al 2010 for more information). The same objects were re-processed to compute features with the scikit-image toolbox (http://scikit-image.org). The 1,433,278 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).
The archive contains:
Table of the classification of each object in the dataset, with columns
Table of morphological features computed by ZooProcess. 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
Table of morphological features recomputed with skimage.measure.regionprops on the ROIs produced by ZooProcess. See http://scikit-image.org/docs/dev/api/skimage.measure.html#skimage.measure.regionprops for documentation.
Tree view of the taxonomy and number of images in each taxon, displayed as text.
Map of the sampling locations, to give an idea of the diversity sampled in this dataset.
Directory containing images of each object, named according to the object id objid and sorted in subdirectories according to their taxon.
|Utilisation||While all identifications have been reviewed by at least one human operator, we cannot fully guarantee the correctness of each of the >1.4M identifications, a few mistakes might remain.|
|Acknowledgements||Data collection and processing was supported by the recurrent funding and facilities of the Observatoire Océanologique de Villefranche-sur-Mer and by Tara Expeditions, MOOSE, OCEANOMICS, Parc Naturel Marin d’Iroise, and LEFE DL-PIC and Belmont Forum project WWWPIC.|
WP2: 200µm diam 57cm, Bongo: 300µm diam 57cm, Juday-Bogorov: 330µm diam 50cm, Régent: 680µm diam 100cm.
ZooScan and Zooprocess:
Gorsky G, Ohman MD, Picheral M, Gasparini S, Stemmann L, Romagnan JB, Cawood A, Pesant S, García-Comas C, Prejger F. Digital zooplankton image analysis using the ZooScan integrated system. Journal of plankton research. 2010 Mar 1;32(3):285-303.