Search results for "graphical user interface."
showing 10 items of 50 documents
SEQPACKER: A Biologist-Friendly User Interface to Manipulate Nucleotide Sequences in Genomic Epidemiology
2004
The aim of this paper is to present a new integrated bioinformatics tool for manipulating nucleotide sequences with a user-friendly graphical interface. This tool is named “SeqPacker” because it uses DNA/RNA sequences. In addition, SeqPacker can be seen as a kind of nucleotide chain editor using standardized technologies, nucleotide representation standards, and high platform portability in support of research in Genomic Epidemiology. SeqPacker is written in JAVA as free and stand-alone software for several computer platforms.
JaxoDraw: A graphical user interface for drawing Feynman diagrams
2003
JaxoDraw is a Feynman graph plotting tool written in Java. It has a complete graphical user interface that allows all actions to be carried out via mouse click-and-drag operations in a WYSIWYG fashion. Graphs may be exported to postscript/EPS format and can be saved in XML files to be used in later sessions. One of the main features of JaxoDraw is the possibility to produce LaTeX code that may be used to generate graphics output, thus combining the powers of TeX/LaTeX with those of a modern day drawing program. With JaxoDraw it becomes possible to draw even complicated Feynman diagrams with just a few mouse clicks, without the knowledge of any programming language.
XTDS and SPVIEW: Graphical tools for the analysis and simulation of high-resolution molecular spectra
2008
International audience; XTDS is a Java front-end to the different programs implementing the tensorial formalism developed in the Dijon group [see for instance: V. Boudon, J.-P. Champion, T. Gabard, M. Loëte, F. Michelot, G. Pierre, M. Rotger, Ch. Wenger, M. Rey, J. Mol. Spectrosc. 228 (2004) 620–634 ]. It allows the simulation and analysis of polyad systems for molecules of various symmetries (Td and Oh spherical tops like CH4 and SF6, C2v and C4v quasi-spherical tops like SO2F2 and SF5Cl, D2h molecules like C2H4). SPVIEW is a multiplatform Java application that allows graphical assignment of high-resolution molecular spectra. It is possible to load, display and manipulate experimental and …
PED in 2021: a major update of the protein ensemble database for intrinsically disordered proteins
2020
Abstract The Protein Ensemble Database (PED) (https://proteinensemble.org), which holds structural ensembles of intrinsically disordered proteins (IDPs), has been significantly updated and upgraded since its last release in 2016. The new version, PED 4.0, has been completely redesigned and reimplemented with cutting-edge technology and now holds about six times more data (162 versus 24 entries and 242 versus 60 structural ensembles) and a broader representation of state of the art ensemble generation methods than the previous version. The database has a completely renewed graphical interface with an interactive feature viewer for region-based annotations, and provides a series of descriptor…
A Friendly-Biological Reactor SIMulator (BioReSIM) for studying biological processes in wastewater treatment processes
2014
Biological processes for wastewater treatments are inherently dynamic systems because of the large variations in the influent wastewater flow rate, concentration composition and the adaptive behavior of the involved microorganisms. Moreover, the sludge retention time (SRT) is a critical factor to understand the bioreactor performances when changes in the influent or in the operation conditions take place. Since SRT are usually in the range of 10-30 days, the performance of biological reactors needs a long time to be monitored in a regular laboratory demonstration, limiting the knowledge that can be obtained in the experimental lab practice. In order to overcome this lack, mathematical model…
NAUTILUS Navigator : free search interactive multiobjective optimization without trading-off
2019
We propose a novel combination of an interactive multiobjective navigation method and a trade-off free way of asking and presenting preference information. The NAUTILUS Navigator is a method that enables the decision maker (DM) to navigate in real time from an inferior solution to the most preferred solution by gaining in all objectives simultaneously as (s)he approaches the Pareto optimal front. This means that, while the DM reaches her/his most preferred solution, (s)he avoids anchoring around the starting solution and, at the same time, sees how the ranges of the reachable objective function values shrink without trading-off. The progress of the motion towards the Pareto optimal front is…
Enhancing dynamic graphical analysis with the Lisp-Stat language and the ViSta statistical program
2005
Presented is a sample of computerized methods aimed at multidimensional scaling and psychometric item analysis that offer a dynamic graphical interface to execute analyses and help visualize the results. These methods show how the Lisp-Stat programming language and the ViSta statistical program can be jointly applied to develop powerful computer applications that enhance dynamic graphical analysis methods. The feasibility of this combined strategy relies on two main features: (1) The programming architecture of ViSta enables users to add new statistical methods as plug-ins, which are integrated into the program environment and can make use of all the functions already available in ViSta (e.…
The Logic of User Interface Design
2016
Technical artefacts exist so that people can use them to make something happen. Their capacity to do so depends on the functions and functionalities of the technology, which requires users. Technologies thus have to give users the ability to control them, and the designer’s role is to create the actions and work processes for which the artefacts are intended. This basic HTI pursuit is called user interface design. It applies technical interaction concepts to solve design problems. This chapter presents the overall principles and goals for the user interface design of any technical artefact.
BANΔIT: B’‐factor Analysis for Drug Design and Structural Biology
2020
The analysis of B‐factor profiles from X‐ray protein structures can be utilized for structure‐based drug design since protein mobility changes have been associated with the quality of protein‐ligand interactions. With the BANΔIT (B’‐factor analysis and ΔB’ interpretation toolkit), we have developed a JavaScript‐based browser application that provides a graphical user interface for the normalization and analysis of B’‐factor profiles. To emphasize the usability for rational drug design applications, we have analyzed a selection of crystallographic protein‐ligand complexes and have given exemplary conclusions for further drug optimization including the development of a B’‐factor‐supported pha…
GYROCOMPU: Toolbox Designed for the Analysis of Gyrotron Resonators
2020
The key point of gyrotron design is the analysis of the radio frequency (RF) behavior in gyrotron resonators. This article proposes a comprehensive, user-friendly and effective gyrotron design toolbox (GYROCOMPU) based on the MATLAB platform. GYROCOMPU associates a relatively complete set of codes for gyrotron analysis and integrates them together into a graphical user interface (GUI). The solving algorithm of the cold cavity equations and self-consistent equations is improved. The solving method improvement in these calculation algorithms renders the analysis more efficient and accurate. Three typical examples of gyrotrons working in the 140-GHz TE03 mode, 42-GHz TE03 mode, and 140-GHz TE1…