相关论文: Full Computational Reproducibility in Biological S…

Many research groups aspire to make data and code FAIR and reproducible, yet struggle because the data and code life cycles are disconnected, executable environments are often missing from published work, and technical skill requirements…

The reproducibility of computational pipelines is an expectation in biomedical science, particularly in critical domains like human health. In this context, reporting next generation genome sequencing methods used in precision medicine…

CONTEXT: There is growing interest in establishing software engineering as an evidence-based discipline. To that end, replication is often used to gain confidence in empirical findings, as opposed to reproduction where the goal is showing…

With the advent of Open Science, researchers have started to publish their research artefacts (i. e., data, software, and other products of the investigations) in order to allow others to reproduce their investigations. While this…

Computational reproducibility is fundamental to scientific research, yet many published code supplements lack the necessary documentation to recreate their computational environments. While researchers increasingly share code alongside…

Data analysis in fundamental sciences nowadays is an essential process that pushes frontiers of our knowledge and leads to new discoveries. At the same time we can see that complexity of those analyses increases fast due to a)~enormous…

Biology has taken strong steps towards becoming a computer science aiming at reprogramming nature after the realisation that nature herself has reprogrammed organisms by harnessing the power of natural selection and the digital prescriptive…

Empirical science needs to be based on facts and claims that can be reproduced. This calls for replicating the studies that proclaim the claims, but practice in most fields still fails to implement this idea. When such studies emerged in…

Over the past decade alongside increased focus on computational reproducibility significant efforts have been made to define reproducibility. However, these definitions provide a textual description rather than a framework. The community…

Security especially in the fields of IoT, industrial automation and critical infrastructure is paramount nowadays and a hot research topic. In order to ensure confidence in research results they need to be reproducible. In the past we…

The pursuit of scientific knowledge strongly depends on the ability to reproduce and validate research results. It is a well-known fact that the scientific community faces challenges related to transparency, reliability, and the…

Scientific software-defined as computer programs, scripts, or code used in scientific research, data analysis, modeling, or simulation-has become central to modern research. However, there is limited research on the readability and…

Those seeking to reproduce a computational experiment often need to manually look at the code to see how to build necessary libraries, configure parameters, find data, and invoke the experiment; it is not automatic. Automatic…

Reproducibility should be a cornerstone of scientific research and is a growing concern among the scientific community and the public. Understanding how to design services and tools that support documentation, preservation and sharing is…

This series presents an approach to mathematical biology which makes precise the function of biological molecules. Because biological systems compute, the theory is a general purpose computer language. I build a language for efficiently…

Various fields of science face a reproducibility crisis. For quantum software engineering as an emerging field, it is therefore imminent to focus on proper reproducibility engineering from the start. Yet the provision of reproduction…

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…

A reproducibility crisis has been reported in science, but the extent to which it affects AI research is not yet fully understood. Therefore, we performed a systematic replication study including 30 highly cited AI studies relying on…

Considerable scientific work involves locating, analyzing, systematizing, and synthesizing other publications. Its results end up in a paper's "background" section or in standalone articles, which include meta-analyses and systematic…

For decades, researchers have been applying computer simulation to address problems in biology. However, many of these "grand challenges" in computational biology, such as simulating how proteins fold, remained unsolved due to their great…