Search results for "software tool"
showing 10 items of 40 documents
Evaluation Framework for Analyzing the Applicability of Criteria Lists for the Selection of Requirements Management Tools Supporting Distributed Coll…
2016
Effective requirements management and enabling tools are critical for successfully developing and maintaining services and products. The identification and selection of an appropriate requirements management tool can be a costly, time-consuming, and error-prone undertaking especially in the context of software product line requirements management, requiring the tools to support both product and platform development activities that often involve geographically distributed, collaborating, and competing stakeholders. Criteria lists have been developed to facilitate the selection. This research (1) creates an evaluation framework to review the applicability of the lists for the selection of req…
iSEE: Interactive SummarizedExperiment Explorer
2018
Data exploration is critical to the comprehension of large biological data sets generated by high-throughput assays such as sequencing. However, most existing tools for interactive visualisation are limited to specific assays or analyses. Here, we present the iSEE (Interactive SummarizedExperiment Explorer) software package, which provides a general visual interface for exploring data in a SummarizedExperiment object. iSEE is directly compatible with many existing R/Bioconductor packages for analysing high-throughput biological data, and provides useful features such as simultaneous examination of (meta)data and analysis results, dynamic linking between plots and code tracking for reproduci…
CellMap visualizes protein-protein interactions and subcellular localization
2018
Many tools visualize protein-protein interaction (PPI) networks. The tool introduced here, CellMap, adds one crucial novelty by visualizing PPI networks in the context of subcellular localization, i.e. the location in the cell or cellular component in which a PPI happens. Users can upload images of cells and define areas of interest against which PPIs for selected proteins are displayed (by default on a cartoon of a cell). Annotations of localization are provided by the user or through our in-house database. The visualizer and server are written in JavaScript, making CellMap easy to customize and to extend by researchers and developers.
A multicenter study benchmarks software tools for label-free proteome quantification
2016
The consistent and accurate quantification of proteins by mass spectrometry (MS)-based proteomics depends on the performance of instruments, acquisition methods and data analysis software. In collaboration with the software developers, we evaluated OpenSWATH, SWATH2.0, Skyline, Spectronaut and DIA-Umpire, five of the most widely used software methods for processing data from SWATH-MS (sequential window acquisition of all theoretical fragment ion spectra), a method that uses data-independent acquisition (DIA) for label-free protein quantification. We analyzed high-complexity test datasets from hybrid proteome samples of defined quantitative composition acquired on two different MS instrument…
Preoperative simulation of postoperative iris-fixated phakic intraocular lens position and simulation of aging using high-resolution Scheimpflug imag…
2006
To increase postoperative safety after implantation of iris-fixated phakic intraocular lenses (pIOLs), optimal preoperative evaluation and patient selection is mandatory. We present a new software tool in a high-resolution Scheimpflug imaging device that precisely simulates the postoperative position of an iris-fixated pIOL and also simulates the effect of aging on the pIOL's position.
Using Tic-Tac software to reduce anxiety-related behaviour in adults with autism and learning difficulties during waiting periods: A pilot study
2013
Deficits in the perception of time and processing of changes across time are commonly observed in individuals with autism. This pilot study evaluated the efficacy of the use of the software tool Tic-Tac, designed to make time visual, in three adults with autism and learning difficulties. This research focused on applying the tool in waiting situations where the participants exhibited anxiety-related behaviour. The intervention followed a baseline and intervention (AB) design, and a partial interval recording procedure was used to code the presence of stereotypes, nervous utterances, wandering or other examples of nervousness during the selected waiting situations. The results showed that t…
Revista electrónica de investigación y evaluación educativa
2020
Objetivos: Análisis bibliométrico de los trabajos publicados por RELIEVE en los últimos 15 años; que se corresponden con los procesados por Emerging Sources Citation Index (ESCI), una nueva base de datos de Web of Science (WOS) que pretende corregir la deficiente cobertura de las revistas nacionales de algunos países. Método: Fuente de datos: 195 artículos de RELIEVE recogidos en ESCI. Análisis: Se analizaron las 7.408 referencias emitidas por los 195 trabajos. Igualmente se analizaron las 599 citas recibidas por la revista. Temáticas cubiertas: se volcaron las Author-Keywords de los 195 trabajos en la herramienta de software VOSviewer. Resultados: las citas emitidas arrojan un promedio por…
A new method for morphometric analysis of opal phytoliths from plants.
2014
Micro-morphometry has substantially gained ground in the field of phytolith analysis, but the comparability of results is limited due to the use of different methods. This paper presents a new, user-friendly method based on open-source software (FIJI) that is proposed as a step towards the introduction of a standard method. After obtaining a mask of a phytolith by making a digital drawing, 27 commonly used variables of size and shape are measured automatically. This method is not only useful for phytolith analysis, but may also be used for other fields of morphometric research. Users can furthermore customize the software tool when additional variables are required.
Quantitative Analysis of Dynamic Association in Live Biological Fluorescent Samples
2014
Determining vesicle localization and association in live microscopy may be challenging due to non-simultaneous imaging of rapidly moving objects with two excitation channels. Besides errors due to movement of objects, imaging may also introduce shifting between the image channels, and traditional colocalization methods cannot handle such situations. Our approach to quantifying the association between tagged proteins is to use an object-based method where the exact match of object locations is not assumed. Point-pattern matching provides a measure of correspondence between two point-sets under various changes between the sets. Thus, it can be used for robust quantitative analysis of vesicle …
Intraoral Cameras as a Computer-Aided Diagnosis Tool for Root Canal Orifices
2011
The aim of this study was to evaluate the diagnostic advantage of a new software tool in combination with an intraoral camera for automatic detection of root canal orifices in life videos via the access cavity of extracted human molars. The performance of a predoctoral dental student analyzing the images of the camera (without automatic detection) was compared with that of an experienced observer. Sensitivity and confidence intervals were provided and compared with histological slices of 200 teeth used for evaluation. The software's sensitivity for detection of root canal orifices was 0.957 (95 percent confidence interval: 0.936 to 0.972). The sensitivity for the observer was 0.906 (95 perc…