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Genome sequence analysis plays a pivotal role in enabling many medical and scientific advancements in personalized medicine, outbreak tracing, and forensics. However, the analysis of genome sequencing data is currently bottlenecked by the…
Structural variants compose the majority of human genetic variation, but are difficult to assess using current genomic sequencing technologies. Optical mapping technologies, which measure the size of chromosomal fragments between labeled…
Software architecture is the foundation of a system's ability to achieve various quality attributes, including software performance. However, there lacks comprehensive and in-depth understanding of why and how software architecture and…
Data-driven modeling plays an increasingly important role in different areas of engineering. For most of existing methods, such as genetic programming (GP), the convergence speed might be too slow for large scale problems with a large…
Optimization problems in engineering and applied mathematics are typically solved in an iterative fashion, by systematically adjusting the variables of interest until an adequate solution is found. The iterative algorithms that govern these…
A genetic algorithm (GA) is a search method that optimises a population of solutions by simulating natural evolution. Good solutions reproduce together to create better candidates. The standard GA assumes that any two solutions can mate.…
We present a novel framework for automated interior design that combines large language models (LLMs) with grid-based integer programming to jointly optimize room layout and furniture placement. Given a textual prompt, the LLM-driven agent…
This paper presents the coupling of a building thermal simulation code with genetic algorithms (GAs). GAs are randomized search algorithms that are based on the mechanisms of natural selection and genetics. We show that this coupling allows…
In science and engineering, intelligent processing of complex signals such as images, sound or language is often performed by a parameterized hierarchy of nonlinear processing layers, sometimes biologically inspired. Hierarchical systems…
Composition is a powerful principle for systems biology, focused on the interfaces, interconnections, and orchestration of distributed processes to enable integrative multiscale simulations. Whereas traditional models focus on the structure…
Software testing involves identifying the test cases whichdiscover errors in the program. However, exhaustive testing ofsoftware is very time consuming. In this paper, a technique isproposed to prioritize test case scenarios by identifying…
Single- and multi-layer complex networks have been proven as a powerful tool to study the dynamics within social, technological,or natural systems. An often observed common goal there is to optimize these systems for specific purposes by…
The dose delivered to the planning target volume by proton beams is highly conformal, sparing organs at risk and normal tissues. New treatment planning systems adapted to spot scanning techniques have been recently proposed to…
Empirical software engineering is concerned with the design and analysis of empirical studies that include software products, processes, and resources. Optimization is a form of data analytics in support of human decision-making.…
Co-design plays a pivotal role in energy system planning as it allows for the holistic optimization of interconnected components, fostering efficiency, resilience, and sustainability by addressing complex interdependencies and trade-offs…
Genetic algorithms are considered as one of the most efficient search techniques. Although they do not offer an optimal solution, their ability to reach a suitable solution in considerably short time gives them their respectable role in…
When planning motions in a configuration space that has underlying symmetries (e.g. when manipulating one or multiple symmetric objects), the ideal planning algorithm should take advantage of those symmetries to produce shorter…
Modelling, simulation and optimization form an integrated part of modern design practice in engineering and industry. Tremendous progress has been observed for all three components over the last few decades. However, many challenging issues…
The code written by developers usually suffers from efficiency problems and contain various performance bugs. These inefficiencies necessitate the research of automated refactoring methods for code optimization. Early research in code…
Model merging aims to integrate multiple task-specific fine-tuned models derived from a shared pre-trained checkpoint into a single multi-task model without additional training. Despite extensive research, task interference remains a major…