Search results for "Software"
showing 10 items of 7396 documents
Testing for local structure in spatiotemporal point pattern data
2017
The detection of clustering structure in a point pattern is one of the main focuses of attention in spatiotemporal data mining. Indeed, statistical tools for clustering detection and identification of individual events belonging to clusters are welcome in epidemiology and seismology. Local second-order characteristics provide information on how an event relates to nearby events. In this work, we extend local indicators of spatial association (known as LISA functions) to the spatiotemporal context (which will be then called LISTA functions). These functions are then used to build local tests of clustering to analyse differences in local spatiotemporal structures. We present a simulation stud…
LipiDisease: associate lipids to diseases using literature mining
2021
Abstract Summary Lipids exhibit an essential role in cellular assembly and signaling. Dysregulation of these functions has been linked with many complications including obesity, diabetes, metabolic disorders, cancer and more. Investigating lipid profiles in such conditions can provide insights into cellular functions and possible interventions. Hence the field of lipidomics is expanding in recent years. Even though the role of individual lipids in diseases has been investigated, there is no resource to perform disease enrichment analysis considering the cumulative association of a lipid set. To address this, we have implemented the LipiDisease web server. The tool analyzes millions of recor…
RNA-Seq Atlas—a reference database for gene expression profiling in normal tissue by next-generation sequencing
2012
Abstract Motivation: Next-generation sequencing technology enables an entirely new perspective for clinical research and will speed up personalized medicine. In contrast to microarray-based approaches, RNA-Seq analysis provides a much more comprehensive and unbiased view of gene expression. Although the perspective is clear and the long-term success of this new technology obvious, bioinformatics resources making these data easily available especially to the biomedical research community are still evolving. Results: We have generated RNA-Seq Atlas, a web-based repository of RNA-Seq gene expression profiles and query tools. The website offers open and easy access to RNA-Seq gene expression pr…
Test and power considerations for multiple endpoint analyses using sequentially rejective graphical procedures
2009
A variety of powerful test procedures are available for the analysis of clinical trials addressing multiple objectives, such as comparing several treatments with a control, assessing the benefit of a new drug for more than one endpoint, etc. However, some of these procedures have reached a level of complexity that makes it difficult to communicate the underlying test strategies to clinical teams. Graphical approaches have been proposed instead that facilitate the derivation and communication of Bonferroni-based closed test procedures. In this paper we give a coherent description of the methodology and illustrate it with a real clinical trial example. We further discuss suitable power measur…
Gossip: The Architecture of SpreadPlots
2003
A spreadplot is a visualization that simultaneously shows several different views of a dataset or model. The individual views can be dynamic, can support high-interaction direct manipulation, and can be algebraically linked with each other, possibly via an underlying statistical model. Thus, when a data analyst changes the information shown in one view of a statistical model, the changes can be processed by the model and instantly represented in the other views. Spreadplots simplify the analyst's task when many different plots are relevant to the analysis at hand, as is the case in regression analysis, where there are many plots that can be used for model building and diagnosis. On the othe…
ARC A computerized system for urban garbage collection
1993
In this paper we present ARC a computerized system developed for urban garbage collection. The package is intended to help the planners in the design of efficient collection routes and to facilitate the study and evaluation of alternatives concerning issues such as the type and number of vehicles, frequency of collection and type and location of refuse containers. The final product is a “user friendly” system designed to be used by the planners without outside assistance.
Is there a cost at encoding words with joined letters during visual word recognition?
2018
Abstract For simplicity, models of visual-word recognition have focused on printed words composed of separated letters, thus overlooking the processing of cursive words. Manso de Zuniga, Humphreys, and Evett (1991) claimed that there is an early “cursive normalization” encoding stage when processing written words with joined letters. To test this claim, we conducted a lexical decision experiment in which words were presented either with separated or joined letters. To examine if the cost of letter segmentation occurs early in processing, we also manipulated a factor (i.e., word-frequency) that is posited to affect subsequent lexical processing. Results showed faster response times for the w…
IndElec: A Software for Analyzing Party Systems and Electoral Systems
2011
IndElec is a software addressed to compute a wide range of indices from electoral data, which are intended to analyze both party systems and electoral systems in political studies. Further, IndElec can calculate such indices from electoral data at several levels of aggregation, even when the acronyms of some political parties change across districts. As the amount of information provided by IndElec may be considerable, this software also aids the user in the analysis of electoral data through three capabilities. First, IndElec automatically elaborates preliminary descriptive statistical reports of computed indices. Second, IndElec saves the computed information into text files in data matri…
RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures
2020
Abstract Motivation Mash is a popular hash-based genome analysis toolkit with applications to important downstream analyses tasks such as clustering and assembly. However, Mash is currently not able to fully exploit the capabilities of modern multi-core architectures, which in turn leads to high runtimes for large-scale genomic datasets. Results We present RabbitMash, an efficient highly optimized implementation of Mash which can take full advantage of modern hardware including multi-threading, vectorization and fast I/O. We show that our approach achieves speedups of at least 1.3, 9.8, 8.5 and 4.4 compared to Mash for the operations sketch, dist, triangle and screen, respectively. Furtherm…
Graphical User Interfaces for R
2012
Since R was first launched, it has managed to gain the support of an ever-increasing percentage of academic and professional statisticians. However, the spread of its use among novice and occasional users of statistics have not progressed at the same pace, which can be attributed partially to the lack of a graphical user interface (GUI). Nevertheless, this situation has changed in the last years and there is currently several projects that have added GUIs to R. This article discusses briefly the history of GUIs for data analysis and then introduces the papers submitted to an special issue of the Journal of Statistical Software on GUIs for R.