Harnessing the power of Squidle <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" altimg="si3.svg" display="inline" id="d1e3745"> <mml:mo>+</mml:mo> </mml:math> to develop flexible machine learning models

While our ability to capture seafloor imagery has expanded dramatically, extracting information remains a major bottleneck, as annotation is still largely manual, time-consuming, and costly. Machine Learning (ML) classifiers offer a promising solution, but they often lack generalisation as they are typically trained on small, homogeneous datasets from selected campaigns. Here, we address this challenge by leveraging the Squidle+ platform to assemble a heterogeneous dataset of 1.7 million annotations across 150,000 images from 325 expeditions in Australian waters. To effectively train models on this scale, we introduce a novel dataset distribution strategy, the neighbour-distribution, and implement adaptive cropping to account for varying image resolutions. To assess performance at a national scale, we excluded entire campaigns from training and used them as independent test sets, allowing evaluation on complete transects, in addition to composed datasets. Using this flexible training pipeline, we combined diverse annotation schemes into three high-level Essential Ocean Variables (EOVs): Seagrass, Canopy-Forming Macroalgae, and Hard Coral cover and one species-specific label, Ecklonia radiata. This represents the first use of such a large and diverse dataset for training an ML classifier of Ecklonia radiata. The resulting models achieved test accuracies of 85%-93% for the EOVs and 96.5% for Ecklonia radiata on campaign test sets spanning Australia's coastline, demonstrating robust performance at a national scale. To enhance accessibility, both the code and trained models are made publicly available and directly integrated into Squidle+, lowering the barrier for their use in ecological monitoring programs.

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Publication Details

Journal
Marine Environmental Research
Published
2026-02-09
DOI
https://doi.org/10.1016/j.marenvres.2026.107888
Primary Topic
Marine and coastal plant biology
Type
article
Field-Weighted Citation Impact
0.00
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Harnessing the power of Squidle <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" altimg="si3.svg" display="inline" id="d1e3745"> <mml:mo>+</mml:mo> </mml:math> to develop flexible machine learning models

Jacquomo Monk, Ariell Friedman, NS Barrett, Leonard Günzel et al.
Marine Environmental Research
Marine and coastal plant biology
article

Harnessing the power of Squidle <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" altimg="si3.svg" display="inline" id="d1e3745"> <mml:mo>+</mml:mo> </mml:math> to develop flexible machine learning models

Jacquomo Monk, Ariell Friedman, NS Barrett, Leonard Günzel, Ashlee Bastiaansen, Alberto García Ortiz, Chris Jackett, Ardalan Najafi
article en

Abstract

While our ability to capture seafloor imagery has expanded dramatically, extracting information remains a major bottleneck, as annotation is still largely manual, time-consuming, and costly. Machine Learning (ML) classifiers offer a promising solution, but they often lack generalisation as they are typically trained on small, homogeneous datasets from selected campaigns. Here, we address this challenge by leveraging the Squidle+ platform to assemble a heterogeneous dataset of 1.7 million annotations across 150,000 images from 325 expeditions in Australian waters. To effectively train models on this scale, we introduce a novel dataset distribution strategy, the neighbour-distribution, and implement adaptive cropping to account for varying image resolutions. To assess performance at a national scale, we excluded entire campaigns from training and used them as independent test sets, allowing evaluation on complete transects, in addition to composed datasets. Using this flexible training pipeline, we combined diverse annotation schemes into three high-level Essential Ocean Variables (EOVs): Seagrass, Canopy-Forming Macroalgae, and Hard Coral cover and one species-specific label, Ecklonia radiata. This represents the first use of such a large and diverse dataset for training an ML classifier of Ecklonia radiata. The resulting models achieved test accuracies of 85%-93% for the EOVs and 96.5% for Ecklonia radiata on campaign test sets spanning Australia's coastline, demonstrating robust performance at a national scale. To enhance accessibility, both the code and trained models are made publicly available and directly integrated into Squidle+, lowering the barrier for their use in ecological monitoring programs.

Marine Environmental ResearchVol. 216
Commonwealth Scientific and Industrial Research Organisation (AU), Australian Antarctic Division (AU), Hochschule Bremen (DE), University of Bremen (DE), Norwegian University of Science and Technology (NO), Gretsa University (KE), Institute for Marine and Antarctic Studies
Life below water
Openalex Percentile: Top 65%
Marine and coastal plant biology
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