Search results for "Computer Science Applications"
showing 10 items of 3993 documents
RabbitQC: high-speed scalable quality control for sequencing data
2019
Abstract Motivation Modern sequencing technologies continue to revolutionize many areas of biology and medicine. Since the generated datasets are error-prone, downstream applications usually require quality control methods to pre-process FASTQ files. However, existing tools for this task are currently not able to fully exploit the capabilities of computing platforms leading to slow runtimes. Results We present RabbitQC, an extremely fast integrated quality control tool for FASTQ files, which can take full advantage of modern hardware. It includes a variety of operations and supports different sequencing technologies (Illumina, Oxford Nanopore and PacBio). RabbitQC achieves speedups between …
Quality System for Production Software as Tool for Monitoring and Improving Organization KPIs
2013
In this paper we propose a solution as support for quality systems for production software. The motivation behind this study was to reduce that cost in the production area caused by gaps in the quality of the production software. Our proposal: QSPS (Quality System for Production Software) is offering support in the "vulnerable points" of these quality systems which usually generate nonconformities and have proved to be difficult or impossible to control. QSPS is a method in seven steps or modules that integrates also software tools, templates, checklists, evaluating tools elaborated complying to products, process and system quality standards. If other analyzed methods like: Scrum, XP, Fuzzy…
Energy-Efficiency and Coverage Quality Management for Reliable Diagnostics in Wireless Sensor Networks
2020
International audience; The processing of data and signals provided by sensors aims at extracting rnrelevant features which can be used to assess and diagnose the health state rnof the monitored targets. Nevertheless, Wireless Sensor Networks (WSNs) present rna number of shortcomings that have an impact on the quality of the gathered rndata at the sink level, leading to imprecise diagnostics rnof the observed targets. To improve data accuracy, two main critical and related issues, namely the energy consumption and coverage quality, need to be considered. The goal is to maximize the network lifetime while guaranteeing the complete coverage of all the targets. Unfortunately, these performance…
How Well Can Coarse-Grained Models of Real Polymers Describe Their Structure? The Case of Polybutadiene
2015
Coarse-graining of chemical structure of macromolecules in the melt is investigated using extensive molecular dynamics simulation data which are based on a united atom force-field model of polybutadiene. Systematically increasing the number, n, of the united atoms approximated by an effective coarse-grained monomer, we study the influence of degree of coarse-graining on the structure functions such as the segment-segment intermolecular and intramolecular correlation functions. These results are compared to Monte Carlo simulations of the corresponding coarse-grained bead-spring model and Chen-Kreglewski potential for chain molecules. In contrast to the atomistic chemically realistic model of…
An approach to evaluation of sheet bending force under successive multiaxial stress condition
2009
A new bending under tension test is presented in this paper. This method tries to evaluate bending forces in sheet under successive multiaxial stress condition. This test is carried out in only one step with a pinned cylinder over a material that has been previously deformed to pure shear condition. Due to that, the bending process is made under higher back tension forces than the ones involved in the common methods previously studied in the literature. This entails high pressure values in the sheet-bending tool contact that affects the corresponding friction process. Material is strongly strengthened as a consequence of the deformation practiced in it, and as a result of that, bending forc…
Coarse Graining of Short Polythylene Chains for Studying Polymer Crystallization.
2015
We derive coarse-grained models of polyethylene in the melt state with the aim to study polymer crystallization. This requires a low level of coarse-graining: We use a mapping of two CH2 groups onto one bead. The coarse-grained beads are connected with harmonic springs, an optimized angular potential, and an optional torsional potential. Coarse-grained potentials are derived from detailed all-atom simulations, and an optimized form of the force field is then derived which achieves a good accuracy in reproducing the static properties of the chains. We address the question over which temperature range such models can be used, and in particular if the model is capable of reproducing the phase…
Singlet-Triplet States Interaction Regions in DNA/RNA Nucleobase Hypersurfaces.
2010
The present study provides new insight into the intrinsic mechanisms for the population of the triplet manifold in DNA nucleobases by determining, at the multiconfigurational CASSCF/CASPT2 level, the singlet-triplet states crossing regions and the main decay paths for their lowest singlet and triplet states after near-UV irradiation. The studied singlet-triplet interacting regions are accessible along the minimum energy path of the initially populated singlet bright (1)ππ* state. In particular, all five natural DNA/RNA nucleobases have, at the end of the main minimum energy path and near a conical intersection of the ground and (1)ππ* states, a low-energy, easily accessible, singlet-triplet…
Quantitative Structure–Activity Relationship of the 4,5α-Dihydrotestosterone Steroid Family
2006
Predictive Quantitative Structure - Activity Relationship (QSAR) models of Anabolic/ Androgenic (A/A) activities for the 4,5a-dihydrotestosterone steroid family were obtained by means of multilinear regression using quantum and physicochemical Molecular Descriptors (MDs) as well as a genetic algorithm for the selection of the best subset of MDs. MDs included in our QSAR models allow the structural interpretation of the biological process, evidencing the main role of the shape of molecules, hydrophobicity, and electronic properties. Attempts were made to include lipophilicity (octanol-water partition coefficient) as well as electronic (lowest unoccupied molecular orbital properties and dipol…
Quantitative Structure-Antioxidant Activity Models of Isoflavonoids: A Theoretical Study
2015
Seventeen isoflavonoids from isoflavone, isoflavanone and isoflavan classes are selected from Dalbergia parviflora. The ChEMBL database is representative from these molecules, most of which result highly drug-like. Binary rules appear risky for the selection of compounds with high antioxidant capacity in complementary xanthine/xanthine oxidase, ORAC, and DPPH model assays. Isoflavonoid structure-activity analysis shows the most important properties (log P, log D, pKa, QED, PSA, NH + OH ≈ HBD, N + O ≈ HBA). Some descriptors (PSA, HBD) are detected as more important than others (size measure Mw, HBA). Linear and nonlinear models of antioxidant potency are obtained. Weak nonlinear relationship…
Discrimination and Molecular Design of New Theoretical Hypolipaemic Agents Using the Molecular Connectivity Functions
2000
The molecular topology model and discriminant analysis have been applied to the prediction and QSAR interpretation of some pharmacological properties of hypolipaemic drugs using multivariable regression equations with their statistical parameters. Regression analysis showed that the molecular topology model predicts these properties. The corresponding stability (cross-validation) studies done on the selected prediction models confirmed the goodness of the fits. The method used for hypolipaemic activity selection was a linear discriminant analysis (LDA). We make use of the pharmacological distribution diagrams (PDDs) as a visualizing technique for the identification and design of new hypolip…