Bioacoustics

Monitoring respiration parameters such as respiratory rate could be beneficial to understand the impact of training on equine health and performance and ultimately improve equine welfare. In this work, we compare deep learning-based methods to an adapted signal processing method to automatically detect cyclic respiratory events and extract the dynamic respiratory rate from microphone recordings during high intensity exercise in Standardbred trotters. Our deep learning models are able to detect exhalation sounds (median F1 score of 0.94) in noisy microphone signals and show promising results on unlabelled signals at lower exercising intensity, where the exhalation sounds are less recognisable. Temporal convolutional networks were better at detecting exhalation events and estimating dynamic respiratory rates (median F1: 0.94, Mean Absolute Error (MAE) $\pm$ Confidence Intervals (CI): 1.44$\pm$1.04 bpm, Limits Of Agreements (LOA): 0.63$\pm$7.06 bpm) than long short-term memory networks (median F1: 0.90, MAE$\pm$CI: 3.11$\pm$1.58 bpm) and signal processing methods (MAE$\pm$CI: 2.36$\pm$1.11 bpm). This work is the first to automatically detect equine respiratory sounds and automatically compute dynamic respiratory rates in exercising horses. In the future, our models will be validated on lower exercising intensity sounds and different microphone placements will be evaluated in order to find the best combination for regular monitoring.

Masked token prediction has emerged as a powerful pre-training objective across language, vision, and speech, offering the potential to unify these diverse modalities through a single pre-training task. However, its application for general audio understanding remains underexplored, with BEATs being the only notable example. BEATs has seen limited modifications due to the absence of open-source pre-training code. Furthermore, BEATs was trained only on AudioSet, restricting its broader downstream applicability. To address these gaps, we present OpenBEATs, an open-source framework that extends BEATs via multi-domain audio pre-training. We conduct comprehensive evaluations across six types of tasks, twenty five datasets, and three audio domains, including audio reasoning tasks such as audio question answering, entailment, and captioning. OpenBEATs achieves state-of-the-art performance on six bioacoustics datasets, two environmental sound datasets and five reasoning datasets, performing better than models exceeding a billion parameters at one-fourth their parameter size. These results demonstrate the effectiveness of multi-domain datasets and masked token prediction task to learn general-purpose audio representations. To promote further research and reproducibility, we release all pre-training and evaluation code, pretrained and fine-tuned checkpoints, and training logs at https://github.com/Shikhar-S/OpenBEATs

Prevailing bioacoustic classifiers assign species labels to fixed time-frequency windows rather than to individual vocalizations. When multiple vocalizations occur within the same window, predictions cannot be unambiguously linked to specific calls, which limits analyses at the level of individual vocalizations. This work introduces a framework for time-frequency localized bird classification. A Local-Context Classifier (LCC) identifies species from localized time-frequency events (TFEs), while a Dual-Context Classifier (DCC) combines local and global acoustic context through a fine-tuned bioacoustic foundation model. On an in-distribution dataset from Singapore comprising 306 vocalization classes from 103 bird species, the LCC achieves an F1-micro score of 79.3%, while combining local and global context through the DCC yields the highest overall performance (94.6%). To reduce labeled data requirements, the LCC is pre-trained via self-supervised contrastive learning, achieving an 18.8% relative gain on an out-of-distribution dataset. A focused evaluation on continuous soundscape recordings further demonstrates the potential of the framework for long-term monitoring applications. By preserving the time-frequency localization of individual vocalizations, the proposed framework supports both ecological monitoring and vocalization-level studies of animal acoustic behavior.

Bioacoustic data from Passive Acoustic Monitoring (PAM) generates large datasets where obtaining detailed auditing and labelling is often impractical, resulting in weak annotations (e.g., presence/absence of species over several minutes of recording). In order to effectively capture the complex temporal patterns and key features of long audio segments, we propose a framework comprising dataset standardisation, feature extraction, and classification via Temporal Convolutional Networks (TCN). This approach eliminates the necessity for setting heuristic decision rules or creating time-consuming strong labels. To demonstrate the effectiveness of our approach, we use sperm whale (Physeter macrocephalus) click trains in 4-minute recordings as a case study, from a dataset comprising diverse sources and deployment conditions to maximise generalisability. Our TCN classifiers achieve recall rates exceeding 0.83 at a 0.13 false positive rate, comparable to agreement rates between expert annotators. We compare two methods of feature extraction, Variational AutoEncoders (VAEs) and traditional handpicking of features, and found them to yield similar performance results, with the VAE-based classifiers seeing a more stable performance across datasets and recording conditions. These results offer a way forward in leveraging numerous existing annotated bioacoustic datasets to train automatic classification models, effectively overcoming previous limitations associated with weak labels.