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Nov 4

APTv2: Benchmarking Animal Pose Estimation and Tracking with a Large-scale Dataset and Beyond

Animal Pose Estimation and Tracking (APT) is a critical task in detecting and monitoring the keypoints of animals across a series of video frames, which is essential for understanding animal behavior. Past works relating to animals have primarily focused on either animal tracking or single-frame animal pose estimation only, neglecting the integration of both aspects. The absence of comprehensive APT datasets inhibits the progression and evaluation of animal pose estimation and tracking methods based on videos, thereby constraining their real-world applications. To fill this gap, we introduce APTv2, the pioneering large-scale benchmark for animal pose estimation and tracking. APTv2 comprises 2,749 video clips filtered and collected from 30 distinct animal species. Each video clip includes 15 frames, culminating in a total of 41,235 frames. Following meticulous manual annotation and stringent verification, we provide high-quality keypoint and tracking annotations for a total of 84,611 animal instances, split into easy and hard subsets based on the number of instances that exists in the frame. With APTv2 as the foundation, we establish a simple baseline method named \posetrackmethodname and provide benchmarks for representative models across three tracks: (1) single-frame animal pose estimation track to evaluate both intra- and inter-domain transfer learning performance, (2) low-data transfer and generalization track to evaluate the inter-species domain generalization performance, and (3) animal pose tracking track. Our experimental results deliver key empirical insights, demonstrating that APTv2 serves as a valuable benchmark for animal pose estimation and tracking. It also presents new challenges and opportunities for future research. The code and dataset are released at https://github.com/ViTAE-Transformer/APTv2{https://github.com/ViTAE-Transformer/APTv2}.

  • 4 authors
·
Dec 24, 2023

MammalNet: A Large-scale Video Benchmark for Mammal Recognition and Behavior Understanding

Monitoring animal behavior can facilitate conservation efforts by providing key insights into wildlife health, population status, and ecosystem function. Automatic recognition of animals and their behaviors is critical for capitalizing on the large unlabeled datasets generated by modern video devices and for accelerating monitoring efforts at scale. However, the development of automated recognition systems is currently hindered by a lack of appropriately labeled datasets. Existing video datasets 1) do not classify animals according to established biological taxonomies; 2) are too small to facilitate large-scale behavioral studies and are often limited to a single species; and 3) do not feature temporally localized annotations and therefore do not facilitate localization of targeted behaviors within longer video sequences. Thus, we propose MammalNet, a new large-scale animal behavior dataset with taxonomy-guided annotations of mammals and their common behaviors. MammalNet contains over 18K videos totaling 539 hours, which is ~10 times larger than the largest existing animal behavior dataset. It covers 17 orders, 69 families, and 173 mammal categories for animal categorization and captures 12 high-level animal behaviors that received focus in previous animal behavior studies. We establish three benchmarks on MammalNet: standard animal and behavior recognition, compositional low-shot animal and behavior recognition, and behavior detection. Our dataset and code have been made available at: https://mammal-net.github.io.

  • 8 authors
·
Jun 1, 2023

Choosing an Appropriate Platform and Workflow for Processing Camera Trap Data using Artificial Intelligence

Camera traps have transformed how ecologists study wildlife species distributions, activity patterns, and interspecific interactions. Although camera traps provide a cost-effective method for monitoring species, the time required for data processing can limit survey efficiency. Thus, the potential of Artificial Intelligence (AI), specifically Deep Learning (DL), to process camera-trap data has gained considerable attention. Using DL for these applications involves training algorithms, such as Convolutional Neural Networks (CNNs), to automatically detect objects and classify species. To overcome technical challenges associated with training CNNs, several research communities have recently developed platforms that incorporate DL in easy-to-use interfaces. We review key characteristics of four AI-powered platforms -- Wildlife Insights (WI), MegaDetector (MD), Machine Learning for Wildlife Image Classification (MLWIC2), and Conservation AI -- including data management tools and AI features. We also provide R code in an open-source GitBook, to demonstrate how users can evaluate model performance, and incorporate AI output in semi-automated workflows. We found that species classifications from WI and MLWIC2 generally had low recall values (animals that were present in the images often were not classified to the correct species). Yet, the precision of WI and MLWIC2 classifications for some species was high (i.e., when classifications were made, they were generally accurate). MD, which classifies images using broader categories (e.g., "blank" or "animal"), also performed well. Thus, we conclude that, although species classifiers were not accurate enough to automate image processing, DL could be used to improve efficiencies by accepting classifications with high confidence values for certain species or by filtering images containing blanks.

  • 6 authors
·
Feb 4, 2022

AnimalClue: Recognizing Animals by their Traces

Wildlife observation plays an important role in biodiversity conservation, necessitating robust methodologies for monitoring wildlife populations and interspecies interactions. Recent advances in computer vision have significantly contributed to automating fundamental wildlife observation tasks, such as animal detection and species identification. However, accurately identifying species from indirect evidence like footprints and feces remains relatively underexplored, despite its importance in contributing to wildlife monitoring. To bridge this gap, we introduce AnimalClue, the first large-scale dataset for species identification from images of indirect evidence. Our dataset consists of 159,605 bounding boxes encompassing five categories of indirect clues: footprints, feces, eggs, bones, and feathers. It covers 968 species, 200 families, and 65 orders. Each image is annotated with species-level labels, bounding boxes or segmentation masks, and fine-grained trait information, including activity patterns and habitat preferences. Unlike existing datasets primarily focused on direct visual features (e.g., animal appearances), AnimalClue presents unique challenges for classification, detection, and instance segmentation tasks due to the need for recognizing more detailed and subtle visual features. In our experiments, we extensively evaluate representative vision models and identify key challenges in animal identification from their traces. Our dataset and code are available at https://dahlian00.github.io/AnimalCluePage/

  • 5 authors
·
Jul 27 2

kabr-tools: Automated Framework for Multi-Species Behavioral Monitoring

A comprehensive understanding of animal behavior ecology depends on scalable approaches to quantify and interpret complex, multidimensional behavioral patterns. Traditional field observations are often limited in scope, time-consuming, and labor-intensive, hindering the assessment of behavioral responses across landscapes. To address this, we present kabr-tools (Kenyan Animal Behavior Recognition Tools), an open-source package for automated multi-species behavioral monitoring. This framework integrates drone-based video with machine learning systems to extract behavioral, social, and spatial metrics from wildlife footage. Our pipeline leverages object detection, tracking, and behavioral classification systems to generate key metrics, including time budgets, behavioral transitions, social interactions, habitat associations, and group composition dynamics. Compared to ground-based methods, drone-based observations significantly improved behavioral granularity, reducing visibility loss by 15% and capturing more transitions with higher accuracy and continuity. We validate kabr-tools through three case studies, analyzing 969 behavioral sequences, surpassing the capacity of traditional methods for data capture and annotation. We found that, like Plains zebras, vigilance in Grevy's zebras decreases with herd size, but, unlike Plains zebras, habitat has a negligible impact. Plains and Grevy's zebras exhibit strong behavioral inertia, with rare transitions to alert behaviors and observed spatial segregation between Grevy's zebras, Plains zebras, and giraffes in mixed-species herds. By enabling automated behavioral monitoring at scale, kabr-tools offers a powerful tool for ecosystem-wide studies, advancing conservation, biodiversity research, and ecological monitoring.

8-Calves Image dataset

We introduce the 8-Calves dataset, a benchmark for evaluating object detection and identity classification in occlusion-rich, temporally consistent environments. The dataset comprises a 1-hour video (67,760 frames) of eight Holstein Friesian calves in a barn, with ground truth bounding boxes and identities, alongside 900 static frames for detection tasks. Each calf exhibits a unique coat pattern, enabling precise identity distinction. For cow detection, we fine-tuned 28 models (25 YOLO variants, 3 transformers) on 600 frames, testing on the full video. Results reveal smaller YOLO models (e.g., YOLOV9c) outperform larger counterparts despite potential bias from a YOLOv8m-based labeling pipeline. For identity classification, embeddings from 23 pretrained vision models (ResNet, ConvNextV2, ViTs) were evaluated via linear classifiers and KNN. Modern architectures like ConvNextV2 excelled, while larger models frequently overfit, highlighting inefficiencies in scaling. Key findings include: (1) Minimal, targeted augmentations (e.g., rotation) outperform complex strategies on simpler datasets; (2) Pretraining strategies (e.g., BEiT, DinoV2) significantly boost identity recognition; (3) Temporal continuity and natural motion patterns offer unique challenges absent in synthetic or domain-specific benchmarks. The dataset's controlled design and extended sequences (1 hour vs. prior 10-minute benchmarks) make it a pragmatic tool for stress-testing occlusion handling, temporal consistency, and efficiency. The link to the dataset is https://github.com/tonyFang04/8-calves.

  • 3 authors
·
Mar 17

UniAP: Towards Universal Animal Perception in Vision via Few-shot Learning

Animal visual perception is an important technique for automatically monitoring animal health, understanding animal behaviors, and assisting animal-related research. However, it is challenging to design a deep learning-based perception model that can freely adapt to different animals across various perception tasks, due to the varying poses of a large diversity of animals, lacking data on rare species, and the semantic inconsistency of different tasks. We introduce UniAP, a novel Universal Animal Perception model that leverages few-shot learning to enable cross-species perception among various visual tasks. Our proposed model takes support images and labels as prompt guidance for a query image. Images and labels are processed through a Transformer-based encoder and a lightweight label encoder, respectively. Then a matching module is designed for aggregating information between prompt guidance and the query image, followed by a multi-head label decoder to generate outputs for various tasks. By capitalizing on the shared visual characteristics among different animals and tasks, UniAP enables the transfer of knowledge from well-studied species to those with limited labeled data or even unseen species. We demonstrate the effectiveness of UniAP through comprehensive experiments in pose estimation, segmentation, and classification tasks on diverse animal species, showcasing its ability to generalize and adapt to new classes with minimal labeled examples.

  • 8 authors
·
Aug 19, 2023

Primate Face Identification in the Wild

Ecological imbalance owing to rapid urbanization and deforestation has adversely affected the population of several wild animals. This loss of habitat has skewed the population of several non-human primate species like chimpanzees and macaques and has constrained them to co-exist in close proximity of human settlements, often leading to human-wildlife conflicts while competing for resources. For effective wildlife conservation and conflict management, regular monitoring of population and of conflicted regions is necessary. However, existing approaches like field visits for data collection and manual analysis by experts is resource intensive, tedious and time consuming, thus necessitating an automated, non-invasive, more efficient alternative like image based facial recognition. The challenge in individual identification arises due to unrelated factors like pose, lighting variations and occlusions due to the uncontrolled environments, that is further exacerbated by limited training data. Inspired by human perception, we propose to learn representations that are robust to such nuisance factors and capture the notion of similarity over the individual identity sub-manifolds. The proposed approach, Primate Face Identification (PFID), achieves this by training the network to distinguish between positive and negative pairs of images. The PFID loss augments the standard cross entropy loss with a pairwise loss to learn more discriminative and generalizable features, thus making it appropriate for other related identification tasks like open-set, closed set and verification. We report state-of-the-art accuracy on facial recognition of two primate species, rhesus macaques and chimpanzees under the four protocols of classification, verification, closed-set identification and open-set recognition.

  • 5 authors
·
Jul 3, 2019

From Microbes to Methane: AI-Based Predictive Modeling of Feed Additive Efficacy in Dairy Cows

In an era of increasing pressure to achieve sustainable agriculture, the optimization of livestock feed for enhancing yield and minimizing environmental impact is a paramount objective. This study presents a pioneering approach towards this goal, using rumen microbiome data to predict the efficacy of feed additives in dairy cattle. We collected an extensive dataset that includes methane emissions from 2,190 Holstein cows distributed across 34 distinct sites. The cows were divided into control and experimental groups in a double-blind, unbiased manner, accounting for variables such as age, days in lactation, and average milk yield. The experimental groups were administered one of four leading commercial feed additives: Agolin, Kexxtone, Allimax, and Relyon. Methane emissions were measured individually both before the administration of additives and over a subsequent 12-week period. To develop our predictive model for additive efficacy, rumen microbiome samples were collected from 510 cows from the same herds prior to the study's onset. These samples underwent deep metagenomic shotgun sequencing, yielding an average of 15.7 million reads per sample. Utilizing innovative artificial intelligence techniques we successfully estimated the efficacy of these feed additives across different farms. The model's robustness was further confirmed through validation with independent cohorts, affirming its generalizability and reliability. Our results underscore the transformative capability of using targeted feed additive strategies to both optimize dairy yield and milk composition, and to significantly reduce methane emissions. Specifically, our predictive model demonstrates a scenario where its application could guide the assignment of additives to farms where they are most effective. In doing so, we could achieve an average potential reduction of over 27\% in overall emissions.

  • 3 authors
·
Nov 21, 2023

GPT-4o: Visual perception performance of multimodal large language models in piglet activity understanding

Animal ethology is an crucial aspect of animal research, and animal behavior labeling is the foundation for studying animal behavior. This process typically involves labeling video clips with behavioral semantic tags, a task that is complex, subjective, and multimodal. With the rapid development of multimodal large language models(LLMs), new application have emerged for animal behavior understanding tasks in livestock scenarios. This study evaluates the visual perception capabilities of multimodal LLMs in animal activity recognition. To achieve this, we created piglet test data comprising close-up video clips of individual piglets and annotated full-shot video clips. These data were used to assess the performance of four multimodal LLMs-Video-LLaMA, MiniGPT4-Video, Video-Chat2, and GPT-4 omni (GPT-4o)-in piglet activity understanding. Through comprehensive evaluation across five dimensions, including counting, actor referring, semantic correspondence, time perception, and robustness, we found that while current multimodal LLMs require improvement in semantic correspondence and time perception, they have initially demonstrated visual perception capabilities for animal activity recognition. Notably, GPT-4o showed outstanding performance, with Video-Chat2 and GPT-4o exhibiting significantly better semantic correspondence and time perception in close-up video clips compared to full-shot clips. The initial evaluation experiments in this study validate the potential of multimodal large language models in livestock scene video understanding and provide new directions and references for future research on animal behavior video understanding. Furthermore, by deeply exploring the influence of visual prompts on multimodal large language models, we expect to enhance the accuracy and efficiency of animal behavior recognition in livestock scenarios through human visual processing methods.

  • 5 authors
·
Jun 14, 2024

CLoRA: A Contrastive Approach to Compose Multiple LoRA Models

Low-Rank Adaptations (LoRAs) have emerged as a powerful and popular technique in the field of image generation, offering a highly effective way to adapt and refine pre-trained deep learning models for specific tasks without the need for comprehensive retraining. By employing pre-trained LoRA models, such as those representing a specific cat and a particular dog, the objective is to generate an image that faithfully embodies both animals as defined by the LoRAs. However, the task of seamlessly blending multiple concept LoRAs to capture a variety of concepts in one image proves to be a significant challenge. Common approaches often fall short, primarily because the attention mechanisms within different LoRA models overlap, leading to scenarios where one concept may be completely ignored (e.g., omitting the dog) or where concepts are incorrectly combined (e.g., producing an image of two cats instead of one cat and one dog). To overcome these issues, CLoRA addresses them by updating the attention maps of multiple LoRA models and leveraging them to create semantic masks that facilitate the fusion of latent representations. Our method enables the creation of composite images that truly reflect the characteristics of each LoRA, successfully merging multiple concepts or styles. Our comprehensive evaluations, both qualitative and quantitative, demonstrate that our approach outperforms existing methodologies, marking a significant advancement in the field of image generation with LoRAs. Furthermore, we share our source code, benchmark dataset, and trained LoRA models to promote further research on this topic.

  • 4 authors
·
Mar 28, 2024

AniMer: Animal Pose and Shape Estimation Using Family Aware Transformer

Quantitative analysis of animal behavior and biomechanics requires accurate animal pose and shape estimation across species, and is important for animal welfare and biological research. However, the small network capacity of previous methods and limited multi-species dataset leave this problem underexplored. To this end, this paper presents AniMer to estimate animal pose and shape using family aware Transformer, enhancing the reconstruction accuracy of diverse quadrupedal families. A key insight of AniMer is its integration of a high-capacity Transformer-based backbone and an animal family supervised contrastive learning scheme, unifying the discriminative understanding of various quadrupedal shapes within a single framework. For effective training, we aggregate most available open-sourced quadrupedal datasets, either with 3D or 2D labels. To improve the diversity of 3D labeled data, we introduce CtrlAni3D, a novel large-scale synthetic dataset created through a new diffusion-based conditional image generation pipeline. CtrlAni3D consists of about 10k images with pixel-aligned SMAL labels. In total, we obtain 41.3k annotated images for training and validation. Consequently, the combination of a family aware Transformer network and an expansive dataset enables AniMer to outperform existing methods not only on 3D datasets like Animal3D and CtrlAni3D, but also on out-of-distribution Animal Kingdom dataset. Ablation studies further demonstrate the effectiveness of our network design and CtrlAni3D in enhancing the performance of AniMer for in-the-wild applications. The project page of AniMer is https://luoxue-star.github.io/AniMer_project_page/.

  • 8 authors
·
Dec 1, 2024