Towards Texture- And Shape-Independent 3D Keypoint Estimation in Birds

In this paper, we present a texture-independent approach to estimate and track 3D joint positions of multiple pigeons. For this purpose, we build upon the existing 3D-MuPPET framework, which estimates and tracks the 3D poses of up to 10 pigeons using a multi-view camera setup. We extend this framework by using a segmentation method that generates silhouettes of the individuals, which are then used to estimate 2D keypoints. Following 3D-MuPPET, these 2D keypoints are triangulated to infer 3D poses, and identities are matched in the first frame and tracked in 2D across subsequent frames. Our proposed texture-independent approach achieves comparable accuracy to the original texture-dependent 3D-MuPPET framework. Additionally, we explore our approach's applicability to other bird species. To do that, we infer the 2D joint positions of four bird species without additional fine-tuning the model trained on pigeons and obtain preliminary promising results. Thus, we think that our approach serves as a solid foundation and inspires the development of more robust and accurate texture-independent pose estimation frameworks.

Towards Application-Specific Evaluation of Vision Models: Case Studies in Ecology and Biology

Computer vision methods have demonstrated considerable potential to streamline ecological and biological workflows, with a growing number of datasets and models becoming available to the research community. However, these resources focus predominantly on evaluation using machine learning metrics, with relatively little emphasis on how their application impacts downstream analysis. We argue that models should be evaluated using application-specific metrics that directly represent model performance in the context of its final use case. To support this argument, we present two disparate case studies: (1) estimating chimpanzee abundance and density with camera trap distance sampling when using a video-based behaviour classifier and (2) estimating head rotation in pigeons using a 3D posture estimator. We show that even models with strong machine learning performance (e.g., 87% mAP) can yield data that leads to discrepancies in abundance estimates compared to expert-derived data. Similarly, the highest-performing models for posture estimation do not produce the most accurate inferences of gaze direction in pigeons. Motivated by these findings, we call for researchers to integrate application-specific metrics in ecological/biological datasets, allowing for models to be benchmarked in the context of their downstream application and to facilitate better integration of models into application workflows.

Neural Texture Puppeteer: A Framework for Neural Geometry and Texture Rendering of Articulated Shapes, Enabling Re-Identification at Interactive Speed

In this paper, we present a neural rendering pipeline for textured articulated shapes that we call Neural Texture Puppeteer. Our method separates geometry and texture encoding. The geometry pipeline learns to capture spatial relationships on the surface of the articulated shape from ground truth data that provides this geometric information. A texture auto-encoder makes use of this information to encode textured images into a global latent code. This global texture embedding can be efficiently trained separately from the geometry, and used in a downstream task to identify individuals. The neural texture rendering and the identification of individuals run at interactive speeds. To the best of our knowledge, we are the first to offer a promising alternative to CNN- or transformer-based approaches for re-identification of articulated individuals based on neural rendering. Realistic looking novel view and pose synthesis for different synthetic cow textures further demonstrate the quality of our method. Restricted by the availability of ground truth data for the articulated shape's geometry, the quality for real-world data synthesis is reduced. We further demonstrate the flexibility of our model for real-world data by applying a synthetic to real-world texture domain shift where we reconstruct the texture from a real-world 2D RGB image. Thus, our method can be applied to endangered species where data is limited. Our novel synthetic texture dataset NePuMoo is publicly available to inspire further development in the field of neural rendering-based re-identification.

3D-MuPPET: 3D Multi-Pigeon Pose Estimation and Tracking

Markerless methods for animal posture tracking have been developing recently, but frameworks and benchmarks for tracking large animal groups in 3D are still lacking. To overcome this gap in the literature, we present 3D-MuPPET, a framework to estimate and track 3D poses of up to 10 pigeons at interactive speed using multiple-views. We train a pose estimator to infer 2D keypoints and bounding boxes of multiple pigeons, then triangulate the keypoints to 3D. For correspondence matching, we first dynamically match 2D detections to global identities in the first frame, then use a 2D tracker to maintain correspondences accross views in subsequent frames. We achieve comparable accuracy to a state of the art 3D pose estimator for Root Mean Square Error (RMSE) and Percentage of Correct Keypoints (PCK). We also showcase a novel use case where our model trained with data of single pigeons provides comparable results on data containing multiple pigeons. This can simplify the domain shift to new species because annotating single animal data is less labour intensive than multi-animal data. Additionally, we benchmark the inference speed of 3D-MuPPET, with up to 10 fps in 2D and 1.5 fps in 3D, and perform quantitative tracking evaluation, which yields encouraging results. Finally, we show that 3D-MuPPET also works in natural environments without model fine-tuning on additional annotations. To the best of our knowledge we are the first to present a framework for 2D/3D posture and trajectory tracking that works in both indoor and outdoor environments.