TreeSRNF: Square-Root Normal Fields for Generative Modelling of the Geometric and Structural Variability in Tree-like 3D Objects

We introduce a novel mathematical framework for analyzing and generating complex tree-shaped 3D objects, such as botanical trees and plants, which deform both in their 3D geometry and branching structure. Unlike previous works, which either consider only the skeletal structure of tree-like objects or approximate their 3D geometry using branch thickness, the proposed framework accurately models both the 3D geometry of the tree branches and the way they are interconnected. In this paper, we first generalize the Square Root Normal Fields (SRNF) representation, originally proposed for the statistical analysis of genus-0 surfaces, to tree-shaped 3D objects. We then treat tree-shaped 3D objects as points on a novel Riemannian tree-shape space equipped with a novel Riemannian metric that measures the amount of surface bending and stretching, and structural changes one needs to apply to one 3D tree-shape to align it with another. This way, deformations become trajectories in this novel tree-shape space. We analyze the theoretical properties of this novel tree-shape space and the corresponding metric and develop algorithms for computing point-wise and branch-wise correspondences and geodesic paths between complex 3D trees. We finally show how to use these building blocks for (1) computing statistical summaries, \ie means and modes of variation, of collections of tree-shaped 3D objects, and (2) synthesizing novel tree-shaped 3D objects by sampling from probability distributions fitted to a population of tree-shaped 3D objects. We demonstrate the performance and utility of the proposed framework on real and synthetic plants and botanical trees and show that it significantly outperforms the state-of-the-art.

Data-Driven Prediction of Dynamic Interactions Between Robot Appendage and Granular Material

An alternative data-driven modeling approach has been proposed and employed to gain fundamental insights into robot motion interaction with granular terrain at certain length scales. The approach is based on an integration of dimension reduction (Sequentially Truncated Higher-Order Singular Value Decomposition), surrogate modeling (Gaussian Process), and data assimilation techniques (Reduced Order Particle Filter). This approach can be used online and is based on offline data, obtained from the offline collection of high-fidelity simulation data and a set of sparse experimental data. The results have shown that orders of magnitude reduction in computational time can be obtained from the proposed data-driven modeling approach compared with physics-based high-fidelity simulations. With only simulation data as input, the data-driven prediction technique can generate predictions that have comparable accuracy as simulations. With both simulation data and sparse physical experimental measurement as input, the data-driven approach with its embedded data assimilation techniques has the potential in outperforming only high-fidelity simulations for the long-horizon predictions. In addition, it is demonstrated that the data-driven modeling approach can also reproduce the scaling relationship recovered by physics-based simulations for maximum resistive forces, which may indicate its general predictability beyond a case-by-case basis. The results are expected to help robot navigation and exploration in unknown and complex terrains during both online and offline phases.

Fuzzy Rule-based Differentiable Representation Learning

Representation learning has emerged as a crucial focus in machine and deep learning, involving the extraction of meaningful and useful features and patterns from the input data, thereby enhancing the performance of various downstream tasks such as classification, clustering, and prediction. Current mainstream representation learning methods primarily rely on non-linear data mining techniques such as kernel methods and deep neural networks to extract abstract knowledge from complex datasets. However, most of these methods are black-box, lacking transparency and interpretability in the learning process, which constrains their practical utility. To this end, this paper introduces a novel representation learning method grounded in an interpretable fuzzy rule-based model. Specifically, it is built upon the Takagi-Sugeno-Kang fuzzy system (TSK-FS) to initially map input data to a high-dimensional fuzzy feature space through the antecedent part of the TSK-FS. Subsequently, a novel differentiable optimization method is proposed for the consequence part learning which can preserve the model's interpretability and transparency while further exploring the nonlinear relationships within the data. This optimization method retains the essence of traditional optimization, with certain parts of the process parameterized corresponding differentiable modules constructed, and a deep optimization process implemented. Consequently, this method not only enhances the model's performance but also ensures its interpretability. Moreover, a second-order geometry preservation method is introduced to further improve the robustness of the proposed method. Extensive experiments conducted on various benchmark datasets validate the superiority of the proposed method, highlighting its potential for advancing representation learning methodologies.

Dynamic Neural Surfaces for Elastic 4D Shape Representation and Analysis

We propose a novel framework for the statistical analysis of genus-zero 4D surfaces, i.e., 3D surfaces that deform and evolve over time. This problem is particularly challenging due to the arbitrary parameterizations of these surfaces and their varying deformation speeds, necessitating effective spatiotemporal registration. Traditionally, 4D surfaces are discretized, in space and time, before computing their spatiotemporal registrations, geodesics, and statistics. However, this approach may result in suboptimal solutions and, as we demonstrate in this paper, is not necessary. In contrast, we treat 4D surfaces as continuous functions in both space and time. We introduce Dynamic Spherical Neural Surfaces (D-SNS), an efficient smooth and continuous spatiotemporal representation for genus-0 4D surfaces. We then demonstrate how to perform core 4D shape analysis tasks such as spatiotemporal registration, geodesics computation, and mean 4D shape estimation, directly on these continuous representations without upfront discretization and meshing. By integrating neural representations with classical Riemannian geometry and statistical shape analysis techniques, we provide the building blocks for enabling full functional shape analysis. We demonstrate the efficiency of the framework on 4D human and face datasets. The source code and additional results are available at https://4d-dsns.github.io/DSNS/.

Generative Fuzzy System for Sequence Generation

Generative Models (GMs), particularly Large Language Models (LLMs), have garnered significant attention in machine learning and artificial intelligence for their ability to generate new data by learning the statistical properties of training data and creating data that resemble the original. This capability offers a wide range of applications across various domains. However, the complex structures and numerous model parameters of GMs make the input-output processes opaque, complicating the understanding and control of outputs. Moreover, the purely data-driven learning mechanism limits GM's ability to acquire broader knowledge. There remains substantial potential for enhancing the robustness and generalization capabilities of GMs. In this work, we introduce the fuzzy system, a classical modeling method that combines data and knowledge-driven mechanisms, to generative tasks. We propose a novel Generative Fuzzy System framework, named GenFS, which integrates the deep learning capabilities of GM with the interpretability and dual-driven mechanisms of fuzzy systems. Specifically, we propose an end-to-end GenFS-based model for sequence generation, called FuzzyS2S. A series of experimental studies were conducted on 12 datasets, covering three distinct categories of generative tasks: machine translation, code generation, and summary generation. The results demonstrate that FuzzyS2S outperforms the Transformer in terms of accuracy and fluency. Furthermore, it exhibits better performance on some datasets compared to state-of-the-art models T5 and CodeT5.

A Riemannian Approach for Spatiotemporal Analysis and Generation of 4D Tree-shaped Structures

We propose the first comprehensive approach for modeling and analyzing the spatiotemporal shape variability in tree-like 4D objects, i.e., 3D objects whose shapes bend, stretch, and change in their branching structure over time as they deform, grow, and interact with their environment. Our key contribution is the representation of tree-like 3D shapes using Square Root Velocity Function Trees (SRVFT). By solving the spatial registration in the SRVFT space, which is equipped with an L2 metric, 4D tree-shaped structures become time-parameterized trajectories in this space. This reduces the problem of modeling and analyzing 4D tree-like shapes to that of modeling and analyzing elastic trajectories in the SRVFT space, where elasticity refers to time warping. In this paper, we propose a novel mathematical representation of the shape space of such trajectories, a Riemannian metric on that space, and computational tools for fast and accurate spatiotemporal registration and geodesics computation between 4D tree-shaped structures. Leveraging these building blocks, we develop a full framework for modelling the spatiotemporal variability using statistical models and generating novel 4D tree-like structures from a set of exemplars. We demonstrate and validate the proposed framework using real 4D plant data.

LSTM Autoencoder-based Deep Neural Networks for Barley Genotype-to-Phenotype Prediction

Artificial Intelligence (AI) has emerged as a key driver of precision agriculture, facilitating enhanced crop productivity, optimized resource use, farm sustainability, and informed decision-making. Also, the expansion of genome sequencing technology has greatly increased crop genomic resources, deepening our understanding of genetic variation and enhancing desirable crop traits to optimize performance in various environments. There is increasing interest in using machine learning (ML) and deep learning (DL) algorithms for genotype-to-phenotype prediction due to their excellence in capturing complex interactions within large, high-dimensional datasets. In this work, we propose a new LSTM autoencoder-based model for barley genotype-to-phenotype prediction, specifically for flowering time and grain yield estimation, which could potentially help optimize yields and management practices. Our model outperformed the other baseline methods, demonstrating its potential in handling complex high-dimensional agricultural datasets and enhancing crop phenotype prediction performance.