DIATLAS - The French freshwater DIatom ATLAS image dataset [* Cross-Reference *]

Version 1.0
Galinier, Corentin; Villefourceix-Gimenez, Pierre; Bojic, Clément; Wetzel, Carlos Eduardo; Fix, Jeremy; Morin, Soizic; Laviale, Martin, 2025, "DIATLAS - The French freshwater DIatom ATLAS image dataset [* Cross-Reference *]", https://lore.list.lu/citation?persistentId=perma:LIST.PWWKNW, LIST Open Repository, V1
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Description
This dataset contains photonic (optical) microscopy images of diatoms extracted from French regional atlases, documenting specimens collected from freshwater streams. These images were acquired using either Bright Field (BF) or Differential Interference Contrast (DIC) techniques. Each image is associated with a taxonomic classification.
This dataset was used to train two Convolutional Neural Network (CNN) models:

A detection model, based on the ai4oshub/ai4os-yolov8-torch module, designed to predict oriented bounding boxes around diatoms. It is built on a pre-trained YOLOv8, fine-tuned on manually labeled data.

 > Diatom detection with oriented bounding boxes

A classification model, based on Ultralytics' YOLOv8-cls architecture, designed to classify diatom at the species level. 
> Diatom classification at the species level

Image metadata are provided in the diatoms.csv, sources.csv, and taxonomic_code.csv files.
 
All informations are detailed in the README.pdf
Data sources
The dataset is based on images gathered from French regional diatom taxonomic atlases (available as open-access PDFs). All informations are detailed in the README.pdf
Contact information
For more information on the dataset and/or the models, you can contact martin.laviale @ univ-lorraine.fr & Jeremy.Fix @ centralesupelec.fr (2025-08-26)
***This entry has been automatically imported via Datacite by LIST harvest scripts. Please refer to https://doi.org/10.5281/zenodo.16260886 for the original and latest version of the dataset and data downloads*** (2025-09-02)
Subject Earth and Environmental Sciences
Keyword diatoms, Deep Learning/classification, Image classification
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