Alberto Badias

Cell biomechanics involve a great number of complex phenomena that are fundamental to the evolution of life itself and other associated processes, ranging from the very early stages of embryo-genesis to the maintenance of damaged structures or the growth of tumors. Given the importance of such phenomena, increasing research has been dedicated to their understanding, but the many interactions between them and their influence on the decisions of cells as a collective network or cluster remain unclear. We present a new approach that combines Structure Preserving Neural Networks, which study cell movements as a purely mechanical system, with other Machine Learning tools (Artificial Neural Networks), which allow taking into consideration environmental factors that can be directly deduced from an experiment with Computer Vision techniques. This new model, tested on simulated and real cell migration cases, predicts complete cell trajectories following a roll-out policy with a high level of accuracy. This work also includes a mitosis evento prediction model based on Neural Networks architectures which makes use of the same observed features. The AI contribution is a structure-preserving neural framework for time-dependent prediction, while the engineering application is video-based modelling of cell migration and mitosis in biomedical engineering.

We develop inductive biases for the machine learning of complex physical systems based on the port-Hamiltonian formalism. To satisfy by construction the principles of thermodynamics in the learned physics (conservation of energy, non-negative entropy production), we modify accordingly the port-Hamiltonian formalism so as to achieve a port-metriplectic one. We show that the constructed networks are able to learn the physics of complex systems by parts, thus alleviating the burden associated to the experimental characterization and posterior learning process of this kind of systems. Predictions can be done, however, at the scale of the complete system. Examples are shown on the performance of the proposed technique.

Learning and reasoning about physical phenomena is still a challenge in robotics development, and computational sciences play a capital role in the search for accurate methods able to provide explanations for past events and rigorous forecasts of future situations. We propose a thermodynamics-informed active learning strategy for fluid perception and reasoning from observations. As a model problem, we take the sloshing phenomena of different fluids contained in a glass. Starting from full-field and high-resolution synthetic data for a particular fluid, we develop a method for the tracking (perception) and simulation (reasoning) of any previously unseen liquid whose free surface is observed with a commodity camera. This approach demonstrates the importance of physics and knowledge not only in data-driven (gray-box) modeling but also in real-physics adaptation in low-data regimes and partial observations of the dynamics. The presented method is extensible to other domains such as the development of cognitive digital twins able to learn from observation of phenomena for which they have not been trained explicitly.

We present a new framework to measure the intrinsic properties of (deep) neural networks. While we focus on convolutional networks, our framework can be extrapolated to any network architecture. In particular, we evaluate two network properties, namely, capacity, which is related to expressivity, and compression, which is related to learnability. Both these properties depend only on the network structure and are independent of the network parameters. To this end, we propose two metrics: the first one, called layer complexity, captures the architectural complexity of any network layer; and, the second one, called layer intrinsic power, encodes how data are compressed along the network. The metrics are based on the concept of layer algebra, which is also introduced in this article. This concept is based on the idea that the global properties depend on the network topology, and the leaf nodes of any neural network can be approximated using local transfer functions, thereby allowing a simple computation of the global metrics. We show that our global complexity metric can be calculated and represented more conveniently than the widely used Vapnik–Chervonenkis (VC) dimension. We also compare the properties of various state-of-the-art architectures using our metrics and use the properties to analyze their accuracy on benchmark image classification datasets.

Learning and reasoning about physical phenomena is still a challenge in robotics development, and computational sciences play a capital role in the search for accurate methods able to provide explanations for past events and rigorous forecasts of future situations. We propose a thermodynamics-informed active learning strategy for fluid perception and reasoning from observations. As a model problem, we take the sloshing phenomena of different fluids contained in a glass. Starting from full-field and high-resolution synthetic data for a particular fluid, we develop a method for the tracking (perception) and analysis (reasoning) of any previously unseen liquid whose free surface is observed with a commodity camera. This approach demonstrates the importance of physics and knowledge not only in data-driven (grey box) modeling but also in the correction for real physics adaptation in low data regimes and partial observations of the dynamics. The method presented is extensible to other domains such as the development of cognitive digital twins, able to learn from observation of phenomena for which they have not been trained explicitly.

We present a new framework to measure the intrinsic properties of (deep) neural networks. While we focus on convolutional networks, our framework can be extrapolated to any network architecture. In particular, we evaluate two network properties, namely, capacity, which is related to expressivity, and compression, which is related to learnability. Both these properties depend only on the network structure and are independent of the network parameters. To this end, we propose two metrics: the first one, called layer complexity, captures the architectural complexity of any network layer; and, the second one, called layer intrinsic power, encodes how data is compressed along the network. The metrics are based on the concept of layer algebra, which is also introduced in this paper. This concept is based on the idea that the global properties depend on the network topology, and the leaf nodes of any neural network can be approximated using local transfer functions, thereby, allowing a simple computation of the global metrics. We show that our global complexity metric can be calculated and represented more conveniently than the widely-used VC dimension. We also compare the properties of various state-of-the art architectures using our metrics and use the properties to analyze their accuracy on benchmark image classification datasets.

Physics perception very often faces the problem that only limited data or partial measurements on the scene are available. In this work, we propose a strategy to learn the full state of sloshing liquids from measurements of the free surface. Our approach is based on recurrent neural networks (RNN) that project the limited information available to a reduced-order manifold to not only reconstruct the unknown information but also be capable of performing fluid reasoning about future scenarios in real-time. To obtain physically consistent predictions, we train deep neural networks on the reduced-order manifold that, through the employ of inductive biases, ensure the fulfillment of the principles of thermodynamics. RNNs learn from history the required hidden information to correlate the limited information with the latent space where the simulation occurs. Finally, a decoder returns data to the high-dimensional manifold, to provide the user with insightful information in the form of augmented reality. This algorithm is connected to a computer vision system to test the performance of the proposed methodology with real information, resulting in a system capable of understanding and predicting future states of the observed fluid in real-time.