A General Method for Detection and Segmentation of Terrestrial Arthropods in Images

Svenning, A.; Mougeot, G.; Alison, J.; Chevalier, D.; Molina, N. L. C.; Ong, S.-Q.; Bjerge, K.; Carrillo, J.; Hoeye, T. T.; Geissmann, Q.

doi:10.1101/2025.04.08.647223

bioRxiv · 10.1101/2025.04.08.647223

A General Method for Detection and Segmentation of Terrestrial Arthropods in Images

Svenning, A.·Mougeot, G.·Alison, J.·Chevalier, D.·Molina, N. L. C.·Ong, S.-Q.·Bjerge, K.·Carrillo, J.·Hoeye, T. T.·Geissmann, Q.

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Abstract

To better understand the status and trends of insects and other arthropods, emerging technologies like image recognition are developing rapidly. This is creating a strong demand for efficient and accurate algorithms for detection and localization of arthropods in images. Existing models have modest performance and do not generalise well to variation in scale, appearance and density of specimens, or imaging conditions. Consequently, each new application often requires manual labeling of training data and model training, which limits the uptake of image-based tools and technologies. Here, we introduce flatbug, which is a powerful and general model to count and outline insects and other terrestrial arthropods in images. The training dataset is large and diverse and represent 23 different lab- and field-based imaging systems. The best flatbug model achieves an average F 1 = 94.2% on our validation dataset. Crucially, we show that flatbug has great out-of-the-box performance and generalises well to novel contexts. When images from a given dataset are left out of model training, the performance of flatbug is only reduced by on average 7.1% for the dataset in question. By using truly stratified cross-validation, we set a precedent for robust evaluation of deep learning model performance and generalization. We also take steps towards scale- and size-agnostic arthropod detection, by developing an integrated tiling framework for inference and training. Additionally, flatbug s implementation of YOLOv8 for instance segmentation enables downstream background removal and body size estimation. The generaliseability of flatbug stems from the diversity of contexts represented in the flatbug dataset, including 113550 arthropods annotated across 6131 images. Alongside a fully documented Python package with tutorials for integration and analysis via https://github.com/darsa-group/flat-bug/, the flatbug dataset is available from https://www.doi.org/10.5281/zenodo.14761447. By providing performant models and the accompanying dataset, flatbug offers both a ready-to-use tool and a benchmark for the future. Overall, flatbug represents a significant methodological advance within arthropod image detection, with user-friendly integration for monitoring and research. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=134 SRC="FIGDIR/small/647223v1_ufig1.gif" ALT="Figure 1"> View larger version (80K): org.highwire.dtl.DTLVardef@2d25c0org.highwire.dtl.DTLVardef@9929borg.highwire.dtl.DTLVardef@77ff28org.highwire.dtl.DTLVardef@10bd2f_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Svenning, A., Mougeot, G., Alison, J., Chevalier, D., Molina, N. L. C., Ong, S.-Q., Bjerge, K., Carrillo, J., Hoeye, T. T., Geissmann, Q.. 2025-04-14. A General Method for Detection and Segmentation of Terrestrial Arthropods in Images. https://doi.org/10.1101/2025.04.08.647223

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