Search results for "Visualization"
showing 10 items of 449 documents
Graph grammar engineering: A software specification method
1987
Graphs as conceptual data models are accepted and used in a wide range of different problem areas. Giving some examples we outline common aspects for modeling complex structures by graphs. We present a formal frame-work based on graph grammars to specify graph classes and the corresponding graph manipulations. We show that such a specification can be written in a systematic, engineering-like manner. This is achieved by an extension of the known programmed, attributed graph grammars. Node-set operators are introduced to facilitate graph queries. Concepts like abstraction, decomposition, refinement, parameterization, and integration have been adopted from software engineering to yield a compr…
Towards an Understanding of the Causes of Difficulties in Debugging
2018
Debugging remains one of the areas that have seen little progress since the early days of programming. We argue that the academic approach of observational studies is incapable of capturing the essence of debugging in complex software. Instead, reflections by programmers may provide a better description of the debugging nature and challenges. In this article, we describe a study where we capture the reflections of programmers on thorny bugs that exemplify the major sources of difficulties in debugging. More importantly, we provide suggestions on what could have been done to avoid such thorny bugs from occurring with the same level of difficulties. As a major conclusion, we argue that the be…
Visualization of Parameter Sensitivity of 2D Time-Dependent Flow
2018
In this paper, we present an approach to analyze 1D parameter spaces of time-dependent flow simulation ensembles. By extending the concept of the finite-time Lyapunov exponent to the ensemble domain, i.e., to the parameter that gives rise to the ensemble, we obtain a tool for quantitative analysis of parameter sensitivity both in space and time. We exemplify our approach using 2D synthetic examples and computational fluid dynamics ensembles.
Salient Pixels and Dimensionality Reduction for Display of Multi/Hyperspectral Images
2012
International audience; Dimensionality Reduction (DR) of spectral images is a common approach to different purposes such as visualization, noise removal or compression. Most methods such as PCA or band selection use either the entire population of pixels or a uniformly sampled subset in order to compute a projection matrix. By doing so, spatial information is not accurately handled and all the objects contained in the scene are given the same emphasis. Nonetheless, it is possible to focus the DR on the separation of specific Objects of Interest (OoI), simply by neglecting all the others. In PCA for instance, instead of using the variance of the scene in each spectral channel, we show that i…
Visualization of RNA-Quadruplexes in Live Cells
2015
Visualization of DNA and RNA quadruplex formation in human cells was demonstrated recently with different quadruplex-specific antibodies. Despite the significant interest in these immunodetection approaches, dynamic detection of quadruplex in live cells remains elusive. Here, we report on NaphthoTASQ (N-TASQ), a next-generation quadruplex ligand that acts as a multiphoton turn-on fluorescent probe. Single-step incubation of human and mouse cells with N-TASQ enables the direct detection of RNA-quadruplexes in untreated cells (no fixation, permeabilization or mounting steps), thus offering a unique, unbiased visualization of quadruplexes in live cells.
Gráficas dinámicas interactivas para estadística (26 años después)
2014
This paper briefly reviews the history of dynamic-interactive graphics for statistics, introduces an example of such graphics, and provides a few glimpses as to the current state of things and the future trends we envision. The general conclusion is that dynamic-interactive graphics for statistics are thriving more than ever as they shift from the desktop to the internet. Thus, dynamic-interactive graphics are becoming increasingly important as they: 1) provide non-experts in statistics with the means to carry out analyses on their own; and 2) teach the basic concepts of statistics to students and practitioners with low to moderate mathematics skills. Their increasing popularity makes the l…
Dynamic-Interactive Graphics for Statistics (26 years later)
2014
This paper briefly reviews the history of dynamic-interactive graphicsfor statistics, introduces an example of such graphics, and provides a fewglimpses as to the current state of things and the future trends we envision.The general conclusion is that dynamic-interactive graphics for statistics arethriving more than ever as they shift from the desktop to the internet. Thus,dynamic-interactive graphics are becoming increasingly important as they: 1) provide non-experts in statistics with the means to carry out analyses on their own; and 2) teach the basic concepts of statistics to students and practitioners with low to moderate mathematics skills. Their increasingpopularity makes the lesson…
The History of ViSta: The Visual Statistics System
2012
ViSta is a project that focuses on dynamic and interactive graphics for statistics and was initiated by the late Forrest W. Young at the beginning of the 1990s. For over approximately 20 years, Forrest and other collaborators, including the authors of this article, have used ViSta for experimenting with these kinds of graphics in different settings, applying them to different scenarios of data and statistical analysis, searching to develop the right combination of features most appropriate in each case. In this time, ViSta evolved quite considerably, going through what we reckon were three different stages, namely: the initial one setting forth the foundations of ViSta; the second period wh…
Visualizing categorical data in ViSta
2003
The modules in the statistical package ViSta related to categorical data analysis are presented These modules are: visualization of frequency data with mosaic and bar plots, correspondence analysis, multiple correspondence analysis and loglinear analysis. All these methods are implemented in ViSta with a big emphasis on plots and graphical representations of data, as well as interactivity for the user with the system. These provide a system that has shown to be easy, useful, and powerful, both for novice and experienced users.
ballaxy: web services for structural bioinformatics.
2014
Abstract Motivation: Web-based workflow systems have gained considerable momentum in sequence-oriented bioinformatics. In structural bioinformatics, however, such systems are still relatively rare; while commercial stand-alone workflow applications are common in the pharmaceutical industry, academic researchers often still rely on command-line scripting to glue individual tools together. Results: In this work, we address the problem of building a web-based system for workflows in structural bioinformatics. For the underlying molecular modelling engine, we opted for the BALL framework because of its extensive and well-tested functionality in the field of structural bioinformatics. The large …