Plankton was imaged with Flowcam in contrasted oceanic regions. The full images were processed with the ImageJ software and the regions of interest (ROIs) around each individual object were recorded. A set of associated features were measured on the objects. All objects were classified by a limited number of operators into 167 different classes using the web application EcoTaxa (http://ecotaxa.obs-vlfr.fr). The following dataset corresponds to the 301, 247 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.

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: indicates if the object is a plankton (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

• objid: unique object identifier in EcoTaxa (integer number)

  And 47 features:

• area
• mean
• stddev
• mode
• min/max
• perim
• width
• height
• major
• minor
• angle
• circ
• feret
• intden
• median
• skew
• kurt
• %area
• area_exc
• fractal
• skelarea
• slope
• histcum1, 2, 3
• nb1 nb2 nb3
• symetrieh/symetriev
• symetriehc/symetrievc
• convperim/convarea
• fcons
• thickr
• esd
• elongation
• range
• meanpos
• cv
• sr
• perimferet/perimmajor
• circex

See the “FlowCam_bw_before_2023” sheet - OBJECT metadata, annotation and measurements - , at https://doi.org/10.5281/zenodo.14704250 for definitions.

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.