Related papers: Shu: Visualization of high dimensional biological …
In this paper, a system architecture is proposed that approximately models the functionality of metabolic networks. The AND/OR graph model is used to represent the metabolic network and each processing element in the system emulates the…
This paper presents SPLASH, a publicly available interactive visualisation tool for Smoothed Particle Hydrodynamics (SPH) simulations. Visualisation of SPH data is more complicated than for grid-based codes because the data is defined on a…
We present a path-based design model and system for designing and creating visualisations. Our model represents a systematic approach to constructing visual representations of data or concepts following a predefined sequence of steps. The…
The chemical sciences are producing an unprecedented amount of large, high-dimensional data sets containing chemical structures and associated properties. However, there are currently no algorithms to visualize such data while preserving…
Diamond Light Source (DLS), the UK synchrotron facility, attracts scientists from across the world to perform ground-breaking x-ray experiments. With over 3000 scientific users per year, vast amounts of data are collected across the…
Recently, biclustering is one of the hot topics in bioinformatics and takes the attention of authors from several different disciplines. Hence, many different methodologies from a variety of disciplines are proposed as a solution to the…
In this paper, we describe a Graphical User Interface (GUI) designed to manage large quantities of image data of a biological system. After setting the design requirements for the system, we developed an ecology quantification GUI that…
A genome-scale reconstruction of human metabolism, Recon 2, is available but no interface exists to interactively visualise its content integrated with omics data and simulation results. We manually drew a comprehensive map, ReconMap 2.0,…
This paper proposes a visual analytics framework that addresses the complex user interactions required through a command-line interface to run analyses in distributed data analysis systems. The visual analytics framework facilitates the…
Data scientists across disciplines are increasingly in need of exploratory analysis tools for data sets with a high volume of features of mixed data type (quantitative continuous and discrete categorical). We introduce Sirius, a novel…
More advanced visualization tools are needed to assist with the analyses and interpretation of human metabolomics data, which are rapidly increasing in quantity and complexity. Using a dataset of several hundred bioactive lipid metabolites…
$\chi$iplot is an HTML5-based system for interactive exploration of data and machine learning models. A key aspect is interaction, not only for the interactive plots but also between plots. Even though $\chi$iplot is not restricted to any…
When modeling complex, hierarchical, and time-dynamic systems, such as biological systems, good computational tools are essential. Current tools, while powerful, often lack comprehensive frameworks for modular model composition,…
Traditional analysis techniques may not be sufficient for astronomers to make the best use of the data sets that current and future instruments, such as the Square Kilometre Array and its Pathfinders, will produce. By utilizing the…
BioStatFlow is a free web application, useful to facilitate the performance of statistical analyses of "omics", including metabolomics, data using R packages. It is a fast and easy on-line tool for biologists who are not experts in…
The concept of multilayer networks has become recently integrated into complex systems modeling since it encapsulates a very general concept of complex relationships. Biological pathways are an example of complex real-world networks, where…
This paper presents Lishu, a deployable web artifact for searching, monitoring, and interpreting literature from elite business and management journals. The system integrates the UTD-24 and Financial Times 50 (FT50) journal pools and…
Summary: The Systems Biology Markup Language (SBML) is an extensible standard format for exchanging biochemical models. One of the extensions for SBML is the SBML Layout and Render package. This allows modelers to describe a biochemical…
Git metadata contains rich information for developers to understand the overall context of a large software development project. Thus it can help new developers, managers, and testers understand the history of development without needing to…
Splotch is a rendering algorithm for exploration and visual discovery in particle-based datasets coming from astronomical observations or numerical simulations. The strengths of the approach are production of high quality imagery and…