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Results: We present an application that enables the quantitative analysis of multichannel 5-D (x, y, z, t, channel) and large montage confocal fluorescence microscopy images. The image sequences show stem cells together with blood vessels,…
Cellular automata (CA), originally developed as computational models of natural processes, have become a central subject in the study of complex systems and generative visual forms. Among them, the Ulam-Warburton Cellular Automaton (UWCA)…
Based on a recently proposed non-equilibrium mechanism for spatial pattern formation [cond-mat/0312366] we study how morphogenesis can be controlled by locally coupled discrete dynamical networks, similar to gene regulation networks of…
Motivated by questions in biology and distributed computing, we investigate the behaviour of particular cellular automata, modelled as one-dimensional arrays of identical finite automata. We investigate what sort of self-stabilising…
Primary neuronal cultures have been widely used to study neuronal morphology, neurophysiology, neurodegenerative processes, and molecular mechanism of synaptic plasticity underlying learning and memory. Yet, the unique behavioral properties…
Artistically controlling fluid simulations requires a large amount of manual work by an artist. The recently presented transportbased neural style transfer approach simplifies workflows as it transfers the style of arbitrary input images…
Cellular automata are a set of computational models in discrete space that have a discrete time evolution defined by neighbourhood rules. They are used to simulate many complex systems in physics and science in general. In this work,…
Modern security, infrastructure, and safety-critical systems increasingly operate in environments characterised by disruption, uncertainty, physical damage, and degraded communications. Conventional digital technologies -- centralised…
We present ongoing work on a tool that consists of two parts: (i) A raw micro-level abstract world simulator with an interface to (ii) a 3D game engine, translator of raw abstract simulator data to photorealistic graphics. Part (i)…
Cells exhibit a wide variety of different shapes. This diversity poses a challenge for computational approaches that attempt to shed light on the role cell geometry plays in regulating cell physiology and behavior. The simulation platform…
Cell formation is a critical step in the design of cellular manufacturing systems. Recently, it was tackled using a cut-based-graph-partitioning model. This model meets real-life production systems requirements as it uses the actual amount…
State-of-the-art object detection and segmentation methods for microscopy images rely on supervised machine learning, which requires laborious manual annotation of training data. Here we present a self-supervised method based on time arrow…
This paper focuses on the analysis of sequential image data, particularly brain imaging data such as MRI, fMRI, CT, with the motivation of understanding the brain aging process and neurodegenerative diseases. To achieve this goal, we…
We present a generative image inpainting system to complete images with free-form mask and guidance. The system is based on gated convolutions learned from millions of images without additional labelling efforts. The proposed gated…
This tutorial covers biomedical image reconstruction, from the foundational concepts of system modeling and direct reconstruction to modern sparsity and learning-based approaches. Imaging is a critical tool in biological research and…
Generative modeling of anatomical structures plays a crucial role in virtual imaging trials, which allow researchers to perform studies without the costs and constraints inherent to in vivo and phantom studies. For clinical relevance,…
Generative modeling is typically framed as learning mapping rules, but from an observer's perspective without access to these rules, the task becomes disentangling the geometric support from the probability distribution. We propose that…
Neuronal morphology is essential for studying brain functioning and understanding neurodegenerative disorders. As acquiring real-world morphology data is expensive, computational approaches for morphology generation have been studied.…
Unlike other tissue types, like epithelial tissue, which consist of cells with a much more homogeneous structure and function, the nervous tissue spans in a complex multilayer environment whose topographical features display a large…
We present a novel simulation-free framework for training continuous-time diffusion processes over very general objective functions. Existing methods typically involve either prescribing the optimal diffusion process -- which only works for…