Search Results for "computing" - Page 9
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Showing 551 open source projects for "computing"
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...The primary goal of the project is to deliver the open source that provides the foundation for potentially complex CFD solutions capable of carrying computing in the distributed environment and particularly the Cloud computing.
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GENIE (GEne-geNe IntEraction)
GPU based Parallel Gene-Gene Interaction Analysis
...Most of the latest Central Processing Units (CPUs) have multiple cores, whereas Graphics Processing Units (GPUs) also have hundreds of cores and have been recently used to implement faster scientific software. However, currently there are no genetic analysis software packages that allow users to fully utilize the computing power of these multi-core devices for genetic interaction analysis for binary traits. Here we present a novel software package GENIE, which utilizes the power of multiple GPU or CPU processor cores to parallelize the interaction analysis. Citation: Chikkagoudar, S., Wang, K., & Li, M. (2011). GENIE: a software package for gene-gene interaction analysis in genetic association studies using multiple GPU or CPU cores. ... -
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CADET
Chromatography Analysis and Design Toolkit
...The CADET solver covers a wide range of GRM variants, combining different transport and binding models with state-of-the-art mathematical algorithms and scientific computing techniques. The CADET framework also comprises a MATLAB interface and standard routines for parameter estimation, process optimization and experimental design. CADET is freely distributed as a contribution to the scientific community. If you find it useful for your own work, we would appreciate acknowledgements of the CADET software and citations of our papers: http://doi.org/10.1016/j.compchemeng.2010.03.008 http://doi.org/10.1016/j.compchemeng.2018.02.025 -
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Ergatis is a web-based utility used to create, run, and monitor reusable computational analysis pipelines, utilizing the Workflow engine. It contains pre-built components for common bioinformatics analysis tasks.
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Stop Cyber Threats with VM-Series Next-Gen Firewall on AzureGain integrated visibility across all traffic in a single pass. Deploy Palo Alto Networks VM-Series to determine application identity and content while automating security policy updates via rich APIs.
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alignlib is a C++ library for computing and manipulating sequence alignments of protein sequences. Most of the functions and classes are exported to python thus permitting easy scripting of complex tasks. Alignlib has moved to github (https://github.com/AndreasHeger/alignlib)
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Phoenix Cluster Project is an open cluster architecture. It is built using Gentoo Linux with RootFS shared between all nodes of the cluster. The main components are: Torque/Maui, Network Raid, Ganglia, LAMP Platform, KVM and GLSL for GPGPU.
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gridrpcdm
Library implementing the GridRPC and GridRPC DM OGF stantards.
This library is a common implementation of both the Open Grid Forum GridRPC API _and_ GridRPC API Data Management standards. It is completely modular and already supports middleware modules for DIET and Ninf, as well as data manager modules for iRods, OwnCloud, rsync, scp. The installation is made easy with cmake and testing examples can be launched in a one line command. -
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FreDec
Parallelized FREquency DEComposer algorithm
...After selection of the initial frequency candidates, the algorithm passes through all their possible combinations and estimates their multi-frequency statistical significance. In the end, it prints out the set of largest frequency tuples that were still found significant. The GPU computing is implemented through CUDA and brings a significant performance increase. It is still possible to run FreDec solely on CPU, if no suitable GPU device is available in the system. See the details of the underlying theory in Baluev 2013, MNRAS, V. 436, P. 807 The description of the algorithm itself can be found in arXiv:1309.0100. ... -
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Kepler Monitoring
Kepler is a monitoring system for HPC clusters
Kepler is a monitoring system for HPC clusters : it allows users to monitor cluster elements like nodes, network devices and storage nodes. Analyse can be centered on jobs to determine performances and behaviours. -
Error to trace to log to deploy. One click. No SSH.AppSignal links every error to the trace, the trace to the log, the log to the deploy that shipped it.
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FlowVR is an open source middleware tailored for high performance in situ data processing and analytics running on large parallel machines
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PPSeq: Parallel NGS Analysis
Parallel Processing for Next-Generation Sequencing (NGS) Analysis
High-throughput next generation sequencing (NGS) technology has quickly emerged as a powerful tool in many aspects of biomedical research. However, along with its rapid development, the data magnitude and analysis complexity for NGS far exceed the capacity and capability of traditional small-scale computing facilities, such as multithreading algorithms on standalone workstations. To address this issue, here we present a solution using the ever-increasing supply of processing power by massive parallel processing (MPP) systems. -
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PASHA: Parallelized Short Read Assembly
One of the fastest parallel short read assemblers for large genomes.
...Taking advantage of both shared-memory multi-core CPUs and distributed-memory compute clusters, PASHA has demonstrated its potential to perform high-quality de-novo assembly of large genomes in reasonable time with modest computing resources. Our evaluation using three small real paired-end datasets shows that PASHA is able to produce better assemblies with comparable genome coverage and mis-assembly rates compared to three leading assemblers: Velvet, ABySS and SOAPdenovo. Moreover, PASHA achieves the fastest speed for all three datasets on a single CPU. ... -
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ocland
OpenCL Land, the OpenCL cloud computing interface.
OpenCL Land is the OpenCL cloud computing interface. -
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GISBox by Citiviz
Ready-to-use appliance for GIS, Data Mining and Analysis, Modelling...
GISBox by Citiviz is a ready-to-use virtual appliance containing an assortment of powerful, free and open source GIS, Data Mining and Analysis, Modelling and Programming software and packages. The pre-configured and tested GISBox allows you to try and use in few minutes a variety of software used by data scientists, engineers, physicists, mathematicians, geomatics engineers, and geographers from around the globe, without installing anything more than once the Oracle VirtualBox™ software... -
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BriCS
SaaS for running simulation models in the cloud
The Bristol Cloud Service simulation runner is a cloud computing Software as a Service designed to enable users to quickly launch simulation code on Amazon AWS' Elastic Compute Cloud (EC2). BRiCS is written in Python using the Django framework and interacts with EC2 using the boto API. BriCS enables multiple simulation runs to be launched in parallel from a web browser. Model configuration (parameters) files are uploaded via the browser and results files are downloadable on completion. ... -
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Handles Hexahedral, Tetrahedral, Quadrilateral, and Triangle meshes. Lagrangian, Hierarchic, and Monomial finite elements. Interface to PETSc solvers, adaptive mesh refinement, and extreme portablility.
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ParaSim
Parallelized calculation of molecular similarities
Diversity assessments and comparisons of large compound databases require calculating similarities of millions of compounds in an affordable time. ParaSim addresses this challenge by parallelizing the calculations according to the number of computing cores available on a single machine. It is optimized for the throughput of very large numbers of query structures against very large numbers of reference structures. As as special feature, ParaSim allows to store and and to access frequently queried datasets as persistant objects in memory for short response times. ParaSim calculates chemical similarities based on binary structural fingerprints. ... -
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LARA
Lightweight Architecture for boundedly Rational Agents
For the purpose of policy simulation in coupled social-ecological systems (e.g. energy supply), a credible modelling of actors – especially citizens – and their decision processes is needed. This requires a framework capable of handling high numbers of heterogeneous agents (several hundreds of thousands). LARA (Lightweight Architecture for boundedly Rational Agents) meets these requirements and fills the gap between frameworks without built-in psychological foundations and full-fledged... -
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ShoX is a scalable simulator for wireless networks written in Java. It is easy to install, configure and use, so that reliable and expressive scientific results can be gathered in a short time. Documentation: http://sourceforge.net/apps/mediawiki/shox
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galaxyPhotometrySimulator
Set of scripts to perform galaxy photometry simulations.
This project contains a set of python scripts to perform SExtractor galaxy photometry simulations. It uses Galfit to simulate the galaxies and SExtractor for the photometry. It is defined to be used also with distributed computing and with Condor. No very well documented yet. Developed for my PhD. -
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r2web
Software for medical statistics based on R
The open source software R enables a large number of statistical analyzes. The software R2web allows to use those R functions that are useful for medical students, with a web interface that facilitates the work of the student (it replaces line commands in R with checkboxes, radio buttons, etc. ). Un logiciel en ligne pour les statistiques pour la médecine, basé sur R. Le logiciel open source R permet de faire un grand nombre d'analyses statistiques. Avec R2web, seules les fonctions R... -
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Visu@lGrid
Visu@lGrid - IDE for Building BOINC Projects
Visu@lGrid - UML for BOINC: A Modelling Language Approach for the Development of Distributed Applications based on the Berkeley Open Infrastructure for Network Computing -
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psicode
An open-source quantum chemistry program package
PSI is an open-source program for computing molecular properties using high-accuracy, ab initio, quantum mechanical models.
