Search Results for "parallel computing" - Page 3
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Showing 146 open source projects for "parallel computing"
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PMCGPU
Parallel simulators for Membrane Computing on the GPU
Membrane Computing is a new research area (within Natural Computing) that aims to provide computing devices abstracted from the functioning and structure of living cells. These devices are called P systems. The objective of this project (PMCGPU) is to bring together all the researchers working on the development of parallel simulators for P systems, specially those using the GPU (e.g. -
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dupost
Dual Porosity Stokes model implemented with FEniCS
A coupled dual porosity Stokes model implemented with FEniCS. References: 1. C. Douglas, X. Hu, B. Bai, X. He, M. Wei and J. Hou, "A Data Assimilation Enabled Model for Coupling Dual Porosity Flow with Free Flow," 2018 17th International Symposium on Distributed Computing and Applications for Business Engineering and Science (DCABES), Wuxi, 2018, pp. 304-307. doi: 10.1109/DCABES.2018.00085 2. Hu X., Douglas C.C. (2019) An Implementation of a Coupled Dual-Porosity-Stokes Model with... -
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NUGKit
Numerical Unstrcuted Grid Kit for scientific computing
This project is providing some part of scientific computing for doing finite element method about grid or mesh information. It is designed for handling grid information in parallel computing. And it also provides some modules for boundary conditions and data file formats. -
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Avian Parallel Computing
Develop parallel programs. Try various thread configs. GUI front-end.
Avian Computing seeks to efficiently create parallel programs by changing how we think about parallel programs. Avian Computing discourages thinking about lines of code and encourages us to use a new model: flocks of birds. Changing the model to flocks of birds makes it easier to think about the actions that we want to perform concurrently, which leads to simpler and quicker development of working parallel programs. -
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Incanter
Clojure-based, R-like statistical computing and graphics environment
Incanter is a Clojure-based, R-like statistical computing and visualization library running on the JVM. It integrates core numerical libraries like Parallel Colt and JFreeChart to deliver data manipulation, modeling, statistical tests, and charting in a REPL-friendly environment. Start by visiting the Incanter website for an overview, check out the documentation page for a listing of HOW-TOs and examples, and then download either an Incanter executable or a pre-built version of the latest build of Incanter, which includes all the necessary dependencies, and unpack the file (if you would like to build it from source, read Building Incanter). ... -
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A framework to run MATLAB programs as batch jobs. Features a structured input description, integrity constraints and GUI.Independent parts of a job can execute in parallel on a cluster computer. Developed at Freiburg Brain Imaging (FBI) - http://fbi.uniklinik-freiburg.de/
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UmUTracker
A MATLAB program for 2D particle tracking or 3D DHM based tracking.
We present a versatile and fast MATLAB program (UmUTracker) that automatically detects and tracks particles by analyzing long video sequences acquired by either light microscopy or digital holography microscopy (DHM). Our program finds the 2D particle center position using an isosceles triangle transform and the axial position by a fast implementation of Rayleigh-Sommerfeld numerical reconstruction algorithm using a one dimensional radial intensity profile. *Updates v1.1: 2017/11/21- Bug... -
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CUDA-MEME
Ultrafast scalable motif discovery algorithm using GPU computing
mCUDA-MEME is a well-established ultrafast scalable motif discovery algorithm based on MEME (version 4.4.0) algorithm for multiple GPUs using a hybrid combination of CUDA, MPI and OpenMP parallel programming models. This algorithm is a further extension of CUDA-MEME (based on MEME version 3.5.4) with respect to accuracy and speed and has been tested on a GPU cluster with eight compute nodes and two Fermi-based Tesla S2050 (and Tesla-based Tesla S1070) quad-GPU computing systems, running the Linux OS with the MPICH2 library. ... -
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QuickRNASeq
A pipeline for large scale RNA-seq data analysis
We have implemented QuickRNASeq, an open-source based pipeline for large scale RNA-seq data analysis. QuickRNASeq takes advantage of parallel computing resources, a careful selection of previously published algorithms for RNA-seq read mapping, counting and quality control, and a three-stage strategy to build a fully automated workflow. We also implemented built-in functionalities to detect sample swapping or mislabeling in large-scale RNA-seq studies. Our pipeline significantly lifts large-scale RNA-seq data analysis to the next level of automation and visualization. ... -
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PyCNN
Image Processing with Cellular Neural Networks in Python
Image Processing with Cellular Neural Networks in Python. Cellular Neural Networks (CNN) are a parallel computing paradigm that was first proposed in 1988. Cellular neural networks are similar to neural networks, with the difference that communication is allowed only between neighboring units. Image Processing is one of its applications. CNN processors were designed to perform image processing; specifically, the original application of CNN processors was to perform real-time ultra-high frame-rate (>10,000 frame/s) processing unachievable by digital processors. -
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Advanced Simulation Library
Free multiphysics simulation software package
...Its computational engine is based, among others, on the Lattice Boltzmann Methods (http://en.wikipedia.org/wiki/Lattice_Boltzmann_methods) and is written in OpenCL (http://en.wikipedia.org/wiki/OpenCL) which enable extraordinarily efficient deployment (http://asl.org.il/benchmarks) on a variety of massively parallel architectures, ranging from inexpensive FPGAs, DSPs and GPUs up to heterogeneous clusters and supercomputers. The engine is hidden entirely behind C++ classes, so that no OpenCL knowledge is required from application programmers. ASL can be utilized to model various coupled physical and chemical phenomena and employed in a multitude of fields: computational fluid dynamics, virtual sensing, industrial process data validation and reconciliation, image-guided surgery, computer-aided engineering, high-performance scientific computing, etc.. -
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4. Bagging Nadaraya Watson Estim. (HPC)
Shell/R program to perform Bagging of the Nadaraya Watson Estimator
Shell/R program which performs bagging of the Nadaraya Watson Kernel estimator by parallel computing -
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Parallel Quicksort with MPI
Parallel Quicksort with MPI
...It was invented by C.A.R Hoare in 1961and is using the divide-and-conquer strategy for solving problems [3]. Its partitioning aspects make QuickSort amenable to parallelization using task parallelism. MPI is a message passing interface library allowing parallel computing by sending codes to multiple processors, and can therefore be easily used on most multi-core computers available today. The main aim of this study is to implement the QuickSort algorithm using the Open MPI library and therefore compare the sequential with the parallel execution. -
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2. Tune kernel Ridge MM (HPC parallel)
Shell/R program which tunes kernel Ridge by parallel computing
A shell/R program for HPC Linux clusters which allows users to estimate the optimal rate of decay parameter for kernel Ridge regression, within the mixed model framework, for prediction. The optimal rate of decay is estimated using K-folds cross validation parallelized using cluster nodes. -
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PanCGP
PanCGP: Pangenome and Comparative Genome Analysis Pipeline tool
Pan-genome and Comparative Genome analysis Pipeline tool is a high performance parallel computing analysis tool. The aim of developing this high performance and scalable pipeline is to reduce the time cost of calculating the pan-genomes from the given dataset of protein sequences of bacterial strains. The pipeline is able to compute pan-genome analysis from unpublished data-sets as well. Those results are interpreted in the form of pan-genome, core genome/proteins, dispensable genes/proteins, unique/strain-specific genes/proteins, new gene/protein families and total number of genes per strain of the specie. ... -
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SAT-Assembler
Scalable and accurate targeted gene assembly for large-scale NGS data
...It recovers genes from gene families of particular interest to biologists with high coverage, low chimera rate, and extremely low memory usage compared with exiting gene assembly tools. Moreover, it is naturally compatible with parallel computing platforms. -
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Polaris CFD
Aerodynamics simulations based on gas kinetics
Polaris CFD is a complete CFD software suite for Aerodynamics simulations created by Alta Dynamics. It is validated to provided accurate results for both internal and external flow problems. Its viewer is built on ParaView for pre and post processing. -
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Bat2015
Bachelor of Science (Informatik)
...With a focus on the MILP methods we implement a load balancing and speed up the solving process in a multiplicative way. Sometimes we have super-linear speedup with a small set of hardware. With a splitting of problems, parallel computing and distributing the actual best solution to all running processes we solve CBP much faster than a sequential processing can do. -
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aCompute
Aims to enable researcher to tap in to mobile computing capability
This is a software agent based computing program that will enable researchers and other users to tap in computing power of machine available by sharing work load on the fly with zero configuration on network & resources A self organizing agent program that will understand network and its resource. where as the only job left to researcher is to split up jobs in several chunks of programs either parallel or sequential jobs and go issue the job (A visual Modeler or Scripting support need to be yet designed) Software agents will automatically manage the rest or resource management, sharing , cloning of tasks etc. ... -
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CUDA-Quicksort
CUDA-Quicksort: A GPU-based implementation of the quicksort algorithm
CUDA-quicksort is a GPU-based implementation of the quicksort algorithm. CUDA-quicksort is designed to exploit the power computing of modern NVIDIA GPUs. "Two GPU-based implementations of the quicksort were presented in literature: the GPU-quicksort, a compute-unified device architecture (CUDA) iterative implementation, and the CUDA dynamic parallel (CDP) quicksort, a recursive implementation provided by NVIDIA Corporation."[*]. CUDA-quicksort is an iterative GPU-based implementation of the quicksort algorithm. ... -
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MPJ Express is an implementation of an MPI-like API—standardized by the Java Grande forum—used to write parallel Java applications, which can execute on a variety of parallel platforms ranging from multicore processors to compute clusters/clouds.
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Distributed Video Transcoding
Distributed Video Transcoding
Simple Scalable, Parallel, Multi-bitrate Video Transcoding On Centos / Ubuntu / Suse / RedHat (Bash Scripts) Multi-bitrate Video processing requires lots of computing power and time to process full movie. There are different open source video transcoding and processing tools freely available in Linux, like libav-tools, ffmpeg, mencoder, and handbrake. -
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COMRAD-MPI
Compression of Large Genomic Datasets using Parallel Computing
COMRAD-MPI is a parallel computing algorithm for reducing the computational time for compressing the large genomic data sets based on COMRAD algorithm. It captures the long range repeat redundancies in large genomes there by providing a way to compress the large DNA data set. Three stages- Substitution, Clean up and Huffman encoding have been parallelized using message passing library. -
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HpcTemplateLib
HPC Template Library to supplement the STL
This package is intended to provide the user with threadsafe containers and classes for applications in High Performance Computing (HPC) where parallel programming is commonplace. Today’s multi-core computers bring that parallelism into the realm of everyday use. It is important to provide thread safe containers and classes in this environment. The HPC Template Library (HTL) aims to replace certain portions of the STL. It is a merger and rewrite of classes from the STL, QT, Boost, and SigSlots libraries. ... -
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mapgraph
Massively Parallel Graph processing on GPUs -- now part of Blazegraph
Mapgraph is SYSTAP’s disruptive new technology to exploit the main memory bandwidth advantages of GPUs. The early work was co-developed with the University of Utah SCI Institute and has its pedigree in the UINTAH software running on over 750M cores on the TITAN Super Computer. Today, SYSTAP has commercialized this technology into it’s Blazegraph Accelerator and Blazegraph HPC products. Checkout our options for GPU acceleration of graphs or contact us to learn more: ...
