15 papers · ranked by Valyu relevance
Pavel Kodytek, Alexandra Bodzas, Jan Zidek, Govind Vashishtha
Continual technological advances associated with the recent automation revolution have tremendously increased the impact of computer technology in the industry. Software development and testing are time-consuming processes, and the current market faces a lack of specialized experts. Introducing automation to this field…
Daewon Lee, Pier Luigi Martelli
A variety of real-world phenomena such as biological pathways, communication networks and social relationships can be represented as networks (). An insightful visualization of networks facilitates understanding of the analyzed networks and leads to important discoveries. Therefore, open-source software for analyzing…
Tom C. Freeman, Sebastian Horsewell, Anirudh Patir, Josh Harling-Lee + 6 more
'Tim Regan' 'Barbara B. Shih' 'James Prendergast' 'David A. Hume' 'Tim Angus' 'Eli Zunder'] Graphia is an open-source platform created for the graph-based analysis of the huge amounts of quantitative and qualitative data currently being generated from the study of genomes, genes, proteins metabolites and cells. Core to…
Zelin Wang, Yuanyuan Yin, Jien Wang, Haiyan Yan + 3 more
The advance of high-throughput omics technologies has led to an unprecedented volume of complex biological data (, ). Effective data visualization is not merely an accessory but a critical tool for hypothesis generation, pattern discovery, and the communication of scientific findings. Libraries such as ggplot2 in R…
Wouter W. L. Nuijten, Dmitry Bagaev, Bert de Vries, Dawn E. Holmes
This paper presents GraphPPL.jl, a novel probabilistic programming language designed for graphical models. GraphPPL.jl uniquely represents probabilistic models as factor graphs. A notable feature of GraphPPL.jl is its model nesting capability, which facilitates the creation of modular graphical models and significantly…
N. Jayalakshmi, K. Sakthivel
To achieve robust and user friendly software, it is crucial to make sure that Graphical User Interfaces (GUI) is of quality and reliable. The paper suggests a new method of Quasi-Oppositional Genetic Sparrow Search Algorithm (OOGSSA) of generating test cases efficiently in GUI. The ultimate goal is to have…
Matthias G. Funk, Jose Manuel Cascalho, Ana Isabel Santos, Armando B. Mendes
'Armando B. Mendes'] Recently, efforts have been made to add programming activities to the curriculum that promote computational thinking and foster 21st-century digital skills. One of the programming modalities is the use of Tangible Programming Languages (TPL), used in activities with 4+ year old children. In this…
Humberto Arruda, Edison Renato Silva, Marcus Lessa, Domício Proença Jr. + 1 more
'Domício Proença Jr.' 'Roberto Bartholo'] VOSviewer (version 1.6.17, July 22, 2021). Centre for Science and Technology Studies, Leiden University, The Netherlands. [https://www.vosviewer.com](); free, donations accepted. Bibliometrix (version 3.1, Sep 24, 2021). Department of Economics and Statistics, University of…
Helena Klara Jambor, Martin Bornhäuser, Scott Markel
Graphical abstracts are typically prepared with the same software as posters and figures. Suitable are commercial (e.g., Adobe Illustrator, CorelDraw, Affinity Designer) or open-source (e.g., Inkscape) vector-design software. Vector-based graphics programs are particularly useful as they allow for zooming in and out of…
Måns K. Rosenbaum, David van der Spoel
Generation of Publication-Quality Graphs from GROMACS Output Authors: Måns K. Rosenbaum, David van der Spoel Molecular simulation tools, such as GROMACS, are used routinely to produce time series of energies and other observables. To turn these data into publication-quality figures, a user can either use a (commercial)…
Shumpei Hashimoto
Visualizing genotypic data is essential in genetic research and breeding programs as it offers clear representations of genomic information, enhancing understanding of genetic architecture. This becomes especially critical with the emergence of next-generation sequencing (NGS) technologies, which generate vast datasets…
Eric Mjolsness
Stochastic and Dynamical Graph Grammar Rule Operators in Biological Morphodynamics Authors: ['Eric Mjolsness'] Many emergent, non-fundamental models of complex systems can be described naturally by the temporal evolution of spatial structures with some nontrivial discretized topology, such as a graph with suitable…
Vinh T Nguyen, Kwanghee Jung, Vibhuti Gupta
Data visualization blends art and science to convey stories from data via graphical representations. Considering different problems, applications, requirements, and design goals, it is challenging to combine these two components at their full force. While the art component involves creating visually appealing and…
Pavel Kodytek, Alexandra Bodzas, Jan Zidek
The published funding statement is inaccurate. The correct funding statement is as follows: This work was supported in part with the financial support of the European Union under the REFRESH-Research Excellence For REgion Sustainability and High-tech Industries project number CZ.10.03.01/00/22_003/0000048 via the…
John M. Myers, Hadi Madjid
The accurate copying of nucleotides in DNA replication is arguably a digital computation. So are some cognitive capacities found in all organisms. In 2005 we proved that linking quantum calculations to evidence requires guesswork subject to revision (Madjid and Myers [9]). Based on this proof, we assume computations by…