TY  - CONF
AU  - Kloster, Michael
AU  - Burfeid Castellanos, Andrea
AU  - Vidaković, Danijela
AU  - Mayombo, Ntambwe
AU  - Dani, Mimoza
AU  - Venkataramanan, Aishwarya
AU  - Pradalier, Cédric
AU  - Laviale, Martin
AU  - Beszteri, Bank
PY  - 2023
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6598
AB  - Here, we introduce a collection of more than 83,000 light microscopy images of individual diatom valves or frustules, covering a broad range of taxa and morphology by more than 320 samples from 15 different river and lake ecotypes. The diatoms were imaged at high resolution (< 0.1 µm/pixel) by transmitted light bright-field microscopy, with focus stacking to artificially increase focal depth up to 25 µm, allowing simultaneous observation of valve ornamentation and shape. Taken from a real-world setting, the images partly also include debris, mineral particles or other diatoms. Four experts identified over 500 diatom species; more than 100 species are represented by at least 100 specimens and about 150 by at least 50 specimens each. This data set is about one order of magnitude larger than previously published diatom data sets, and its high interspecies similarity makes it a valuable resource e.g. for benchmarking fine-grained out-of-distribution (OOD) detection, on which we present a new approach.
PB  - International Society for Diatom Research
C3  - Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan
T1  - The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)
SP  - 70
EP  - 70
UR  - https://hdl.handle.net/21.15107/rcub_cer_6598
ER  - 

@conference{
author = "Kloster, Michael and Burfeid Castellanos, Andrea and Vidaković, Danijela and Mayombo, Ntambwe and Dani, Mimoza and Venkataramanan, Aishwarya and Pradalier, Cédric and Laviale, Martin and Beszteri, Bank",
year = "2023",
abstract = "Here, we introduce a collection of more than 83,000 light microscopy images of individual diatom valves or frustules, covering a broad range of taxa and morphology by more than 320 samples from 15 different river and lake ecotypes. The diatoms were imaged at high resolution (< 0.1 µm/pixel) by transmitted light bright-field microscopy, with focus stacking to artificially increase focal depth up to 25 µm, allowing simultaneous observation of valve ornamentation and shape. Taken from a real-world setting, the images partly also include debris, mineral particles or other diatoms. Four experts identified over 500 diatom species; more than 100 species are represented by at least 100 specimens and about 150 by at least 50 specimens each. This data set is about one order of magnitude larger than previously published diatom data sets, and its high interspecies similarity makes it a valuable resource e.g. for benchmarking fine-grained out-of-distribution (OOD) detection, on which we present a new approach.",
publisher = "International Society for Diatom Research",
journal = "Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan",
title = "The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)",
pages = "70-70",
url = "https://hdl.handle.net/21.15107/rcub_cer_6598"
}

Kloster, M., Burfeid Castellanos, A., Vidaković, D., Mayombo, N., Dani, M., Venkataramanan, A., Pradalier, C., Laviale, M.,& Beszteri, B.. (2023). The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I). in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan
International Society for Diatom Research., 70-70.
https://hdl.handle.net/21.15107/rcub_cer_6598

Kloster M, Burfeid Castellanos A, Vidaković D, Mayombo N, Dani M, Venkataramanan A, Pradalier C, Laviale M, Beszteri B. The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I). in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan. 2023;:70-70.
https://hdl.handle.net/21.15107/rcub_cer_6598 .

Kloster, Michael, Burfeid Castellanos, Andrea, Vidaković, Danijela, Mayombo, Ntambwe, Dani, Mimoza, Venkataramanan, Aishwarya, Pradalier, Cédric, Laviale, Martin, Beszteri, Bank, "The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)" in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan (2023):70-70,
https://hdl.handle.net/21.15107/rcub_cer_6598 .