1. An Ecologist-Friendly R Workflow for Expediting Species-Level Classification of Camera Trap Images.
- Author
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Petroni L, Natucci L, and Massolo A
- Abstract
Camera trapping has become increasingly common in ecological studies, but is hindered by analyzing large datasets. Recently, artificial intelligence (deep learning models in particular) has emerged as a promising solution. However, applying deep learning for images processing is complex and often requires programming skills in Python, reducing its accessibility. Some authors addressed this issue with user-friendly software, and a further progress was the transposition of deep learning to R, a statistical language frequently used by ecologists, enhancing flexibility and customization of deep learning models without advanced computer expertise. We aimed to develop a user-friendly workflow based on R scripts to streamline the entire process, from selecting to classifying camera trap images. Our workflow integrates the MegaDetector object detector for labelling images and custom training of the state-of-the-art YOLOv8 model, together with potential for offline image augmentation to manage imbalanced datasets. Inference results are stored in a database compatible with Timelapse for quality checking of model predictions. We tested our workflow on images collected within a project targeting medium and large mammals of Central Italy, and obtained an overall precision of 0.962, a recall of 0.945, and a mean average precision of 0.913 for a training set of only 1000 pictures per species. Furthermore, the custom model achieved 91.8% of correct species-level classifications on a set of unclassified images, reaching 97.1% for those classified with > 90% confidence. YOLO, a fast and light deep learning architecture, enables application of the workflow even on resource-limited machines, and integration with image augmentation makes it useful even during early stages of data collection. All R scripts and pretrained models are available to enable adaptation of the workflow to other contexts, plus further development., Competing Interests: The authors declare no conflicts of interest., (© 2024 The Author(s). Ecology and Evolution published by John Wiley & Sons Ltd.)
- Published
- 2024
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