LeafInst - Unified Instance Segmentation Network for Fine-Grained Forestry Leaf Phenotype Analysis: A New UAV based Benchmark

Rising global food demand and growing climate pressure increase the need for sustainable, precise agricultural practices. Automated, individualized plant treatment relies on fine-grained visual analysis, yet leaf-level segmentation remains underexplored despite its value for assessing crop health, growth dynamics, yield potential and localized stress symptoms. Progress is limited by a lack of dedicated datasets, especially regarding species coverage, and by the absence of systematic evaluations of modern instance-segmentation architectures for this task. We address these gaps by surveying current data and identifying four suitable, publicly available leaf-segmentation datasets. Using them, we compare one-stage, two-stage and Transformer-based detectors and identify a YOLO26 model configuration to provide the best trade-off for real-world precision-agriculture tasks. Extensive cross-domain generalization experiments reveal substantial performance drops across plant species and recording setups, especially for models trained solely on laboratory data. To strengthen data availability, we introduce a new benchmark dataset with leaf-level masks for 23 plant species, created via semi-automatic annotation of selected CropAndWeed images. A model trained on all four existing datasets achieves a mean mAP50-95 of 83.9% across their corresponding test sets and 40.2% on our new benchmark, demonstrating improved generalization and highlighting the need for diverse leaf-segmentation datasets in robust precision agriculture.

We present a highly detailed instance segmentation model for delineating individual tree crowns in natural broadleaf forests using aerial imagery acquired by unmanned aerial vehicles (UAVs). Tree crown delineation in broadleaf forests is more challenging than in other forest types due to diversity of crown shapes and the lack of clearly defined treetops. To address this issue, we developed a deep-learning-based crown segmentation model trained on high-quality annotated crown outlines. We manually delineated 18,507 crown polygons from orthomosaic images collected across seven forests in Japan by skilled annotators, and developed a model based on Mask2Former with multiple backbone architectures. The best model achieved high segmentation performance in structurally complex broadleaf forests using only RGB imagery. This performance was maintained when applied to geographically distinct forests within Japan, as well as to biologically distinct tropical rainforests in Borneo. These results demonstrate that using a large number of high-quality annotated datasets is critical for achieving detailed and generalizable crown segmentation across diverse forest ecosystems. The developed model has been integrated into DF Scanner Pro, a software that supports practical forest monitoring using UAVs, and this implementation is expected to enable a wide range of users to analyze tree-level information in broadleaf forest from UAVs.

Interest in forestry automation is growing alongside rapid advances in deep learning. In particular, tree detection and taxonomic classification are seen as core tasks required for automating field surveys and forestry equipment. These operations must often be performed in under-canopy settings, which pose challenging conditions for perception systems, including heavy occlusion, variable lighting, and dense vegetation. Despite this necessity, current work has yet to properly establish the feasibility of simultaneously executing tree detection and taxonomic classification in natural forests, as available datasets primarily focus on urban settings or on a limited number of species. To address this gap, we present SilvaScenes, a benchmark dataset for instance segmentation of tree species from under-canopy images in natural forests. Collected across five bioclimatic domains in Quebec, Canada, our dataset features 1421 trees from 28 species, with segmentation masks for pixel-precise tree trunk detection and fine-grained species annotations from forestry experts. We demonstrate the relevance and difficult nature of SilvaScenes by evaluating modern deep learning approaches, showing that while trunk segmentation is feasible, with a top mean average precision (mAP) of 69.9% and mean average recall (mAR) of 76.4%, species-aware segmentation remains a significant challenge with an mAP and an mAR of only 39.2% and 68.6%, respectively. Alongside additional experiments, we highlight key challenges, namely that species imbalance and tree occlusion figure among the most pressing issues for precise segmentation and identification. Meanwhile, higher image resolutions contribute to significant performance gains and will likely prove fundamental to these tasks moving forward. Our dataset, source code, and models will be made available at https://github.com/norlab-ulaval/SilvaScenes.