Search results for "Computing Methodologies"
showing 10 items of 16 documents
Next-generation sequencing: big data meets high performance computing
2017
The progress of next-generation sequencing has a major impact on medical and genomic research. This high-throughput technology can now produce billions of short DNA or RNA fragments in excess of a few terabytes of data in a single run. This leads to massive datasets used by a wide range of applications including personalized cancer treatment and precision medicine. In addition to the hugely increased throughput, the cost of using high-throughput technologies has been dramatically decreasing. A low sequencing cost of around US$1000 per genome has now rendered large population-scale projects feasible. However, to make effective use of the produced data, the design of big data algorithms and t…
Big Data in metagenomics: Apache Spark vs MPI.
2020
The progress of next-generation sequencing has lead to the availability of massive data sets used by a wide range of applications in biology and medicine. This has sparked significant interest in using modern Big Data technologies to process this large amount of information in distributed memory clusters of commodity hardware. Several approaches based on solutions such as Apache Hadoop or Apache Spark, have been proposed. These solutions allow developers to focus on the problem while the need to deal with low level details, such as data distribution schemes or communication patterns among processing nodes, can be ignored. However, performance and scalability are also of high importance when…
Complete, Exact and Efficient Implementation for Computing the Adjacency Graph of an Arrangement of Quadrics
2007
The original publication is available at www.springerlink.com ; ISBN 978-3-540-75519-7 ; ISSN 0302-9743 (Print) 1611-3349 (Online); International audience; We present a complete, exact and efficient implementation to compute the adjacency graph of an arrangement of quadrics, \ie surfaces of algebraic degree~2. This is a major step towards the computation of the full 3D arrangement. We enhanced an implementation for an exact parameterization of the intersection curves of two quadrics, such that we can compute the exact parameter value for intersection points and from that the adjacency graph of the arrangement. Our implementation is {\em complete} in the sense that it can handle all kinds of…
Accelerating bioinformatics applications via emerging parallel computing systems [Guest editorial]
2015
The papers in this issue focus on advanced parallel computing systems for bioinformatics applications. This papers provide a forum to publish recent advances in the improvement of handling bioinformatics problems on emerging parallel computing systems. These systems can be characterized by exploiting different types of parallelism, including fine-grained versus coarse-grained and thread-level parallelism versus datalevel parallelism versus request-level parallelism. Hence, parallel computing systems based on multi- and many-core CPUs, many-core GPUs, vector processors, or FPGAs offer the promise to massively accelerate many bioinformatics algorithms and applications, ranging from computeint…
Space and Light, Towards an Interactive Simulation of Lighting
2003
International audience; Une image est une vue, à un instant donné, de l'équilibre lumineux présent dans une scène. Cet équilibre résulte d'un système complexe où l'énergie provenant des sources est re-distribuée dans l'espace par les matériaux appliqués aux formes. Si cet équilibre est perturbé par une modification des conditions lumineuses, l'image précédente n'est plus valide. En cela elle ne représente qu'un instant d'un lieu et non le lieu lui même. Nous proposons ici une approche pour la simulation interactive de l'éclairage dans une scène complexe. Une application à cette étude étant la production d'images vivantes et confondantes dans le cadre de la réalité augmentée.
Economic evaluation of a guided and unguided internet-based CBT intervention for major depression: Results from a multicenter, three-armed randomized…
2017
Depression is one of the most common mental disorders and will become one of the leading causes of disability in the world. Internet-based CBT programs for depression have been classified as well established following the American Psychological Association criteria for empirically supported treatments. The aim of this study is to analyze the cost effectiveness at 12-month follow-up of the Internet-based CBT program Smiling is fun with (LITG) and without psychotherapist support (TSG) compared to usual care. The perspective used in our analysis is societal. A sample of 296 depressed patients (mean age of 43.04 years; 76% female; BDI-II mean score = 22.37) from primary care services in four Sp…
Efficacy of a blended low-intensity internet-delivered psychological programme in patients with multimorbidity in primary care: study protocol for a …
2019
BackgroundThe World Health Organization (WHO) has included comorbidity between depression and a chronic disease among the 10 leading global health priorities. Although there is a high prevalence of multimorbidity, health care systems are mainly designed for the management of individual diseases. Given the difficulty in delivering face-to-face psychological treatments, alternative models of treatment delivery have been proposed, emphasizing the role of technologies such as the Internet. The aim of this study is to assess the efficacy in Primary Care (PC) of a blended low-intensity psychological intervention applied using information and communication technologies (ICTs) for the treatment of …
Low intensity vs. self-guided Internet-delivered psychotherapy for major depression: A multicenter, controlled, randomized study
2013
Abstract Background Major depression will become the second most important cause of disability in 2020. Computerized cognitive-behaviour therapy could be an efficacious and cost-effective option for its treatment. No studies on cost-effectiveness of low intensity vs self-guided psychotherapy has been carried out. The aim of this study is to assess the efficacy of low intensity vs self-guided psychotherapy for major depression in the Spanish health system. Methods The study is made up of 3 phases: 1.- Development of a computerized cognitive-behaviour therapy for depression tailored to Spanish health system. 2.- Multicenter controlled, randomized study: A sample (N=450 patients) with mild/mod…
Sparse kernel methods for high-dimensional survival data
2008
Abstract Sparse kernel methods like support vector machines (SVM) have been applied with great success to classification and (standard) regression settings. Existing support vector classification and regression techniques however are not suitable for partly censored survival data, which are typically analysed using Cox's proportional hazards model. As the partial likelihood of the proportional hazards model only depends on the covariates through inner products, it can be ‘kernelized’. The kernelized proportional hazards model however yields a solution that is dense, i.e. the solution depends on all observations. One of the key features of an SVM is that it yields a sparse solution, dependin…
Cost-driven framework for progressive compression of textured meshes
2019
International audience; Recent advances in digitization of geometry and radiometry generate in routine massive amounts of surface meshes with texture or color attributes. This large amount of data can be compressed using a progressive approach which provides at decoding low complexity levels of details (LoDs) that are continuously refined until retrieving the original model. The goal of such a progressive mesh compression algorithm is to improve the overall quality of the transmission for the user, by optimizing the rate-distortion trade-off. In this paper, we introduce a novel meaningful measure for the cost of a progressive transmission of a textured mesh by observing that the rate-distor…