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It is said that beauty is in the eye of the beholder. But how exactly can we characterize such discrepancies in interpretation? For example, are there any specific features of an image that makes person A regard an image as beautiful while…
Computational methods and associated software implementations are central to every field of scientific investigation. Modern biological research, particularly within systems biology, has relied heavily on the development of software tools…
Multiplexed imaging data are revolutionizing our understanding of the composition and organization of tissues and tumors. A critical aspect of such tissue profiling is quantifying the spatial relationship relationships among cells at…
The applicability of computational models to the biological world is an active topic of debate. We argue that a useful path forward results from abandoning hard boundaries between categories and adopting an observer-dependent, pragmatic…
Due to the availability of increasingly large amounts of visual data, there is a growing need for tools that can help users find relevant images. While existing tools can perform image retrieval based on similarity or metadata, they fall…
Data visualization and analytics are nowadays one of the corner-stones of Data Science, turning the abundance of Big Data being produced through modern systems into actionable knowledge. Indeed, the Big Data era has realized the…
We report on the state-of-the-art of software visualization. To ensure reproducibility, we adopted the Systematic Literature Review methodology. That is, we analyzed 1440 entries from IEEE Xplore and ACM Digital Library databases. We…
The advent of modern technology, permitting the measurement of thousands of characteristics simultaneously, has given rise to floods of data characterized by many large or even huge datasets. This new paradigm presents extraordinary…
Bio-inspired optimization (including Evolutionary Computation and Swarm Intelligence) is a growing research topic with many competitive bio-inspired algorithms being proposed every year. In such an active area, preparing a successful…
Astronomy produces extremely large data sets from ground-based telescopes, space missions, and simulation. The volume and complexity of these rich data sets require new approaches and advanced tools to understand the information contained…
Medical Informatics and the application of modern signal processing in the assistance of the diagnostic process in medical imaging is one of the more recent and active research areas today. This thesis addresses a variety of issues related…
As the bioinformatics field grows, it must keep pace not only with new data but with new algorithms. Here we contribute a thorough analysis of 13 state-of-the-art, commonly used machine learning algorithms on a set of 165 publicly available…
Quantum computing systems depend on the principles of quantum mechanics to perform multiple challenging tasks more efficiently than their classical counterparts. In classical software engineering, the software life cycle is used to document…
Omics software tools have reshaped the landscape of modern biology and become an essential component of biomedical research. The increasing dependence of biomedical scientists on these powerful tools creates a need for easier installation…
The lack of flexible annotation tools has hindered the deployment of AI models in some scientific areas. Most existing image annotation software requires users to upload a precollected dataset, which limits support for on-demand pipelines…
Modern biological research is increasingly data-intensive, leading to a growing demand for effective training in biological data science. In this article, we provide an overview of key resources and best practices available within the…
Tech-leading organizations are embracing the forthcoming artificial intelligence revolution. Intelligent systems are replacing and cooperating with traditional software components. Thus, the same development processes and standards in…
Diverse subfields of neuroscience have enriched artificial intelligence for many decades. With recent advances in machine learning and artificial neural networks, many neuroscientists are partnering with AI researchers and machine learning…
The fields of computing and biology have begun to cross paths in new ways. In this paper a review of the current research in biological computing is presented. Fundamental concepts are introduced and these foundational elements are explored…
Video microscopy has a long history of providing insights and breakthroughs for a broad range of disciplines, from physics to biology. Image analysis to extract quantitative information from video microscopy data has traditionally relied on…