Search Results for "parallel" - Page 36
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Showing 1671 open source projects for "parallel"
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HECTOR
HECTOR is parallel error corrector for 454 datasets
We present HECTOR, a parallel multistage k-hopo spectrum based homopolymer-length error corrector for 454 sequencing data. -
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MIDI Step Sequencer - Cythar
Polyphonic MIDI sequencer
A pattern-oriented, polyphonic MIDI step-sequencer, which makes its own path. 16 parallel patterns with six tracks and 16 bars – equating to 256 bars & 96 tracks. Videos: https://www.youtube.com/watch?v=0UK7US2NwC0&list=PLZCmwv5U3kDP-3jldIzOErbnBOdGjJV_M Source: https://github.com/monotomy/CYTHAR-Sequenzer Check out B-Step Sequencer too: http://b-step.monoplugs.com . A similar, new Project. -
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Fast Matrix for Java
General purpose matrix utilities for Java in Parallel Computing
Fast Matrix for Java (fm4j) is a general-purpose matrix utility library for computing with dense matrices. fm4j encapsulated different underlying implementations and select the optimal one in run-time depending on the size of the input matrix. Moreover, fm4j employs Java (Tm) Concurrency to take advantage of the computation power of multi-cor processors. -
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t2t-pipe
automatic alignment pipeline for parallel treebanks
The *Tree-to-Tree (t2t) Alignment Pipe* is a collection of python scripts, co-ordinating the process of automatic alignment of parallel treebanks from plain text files with a single call from a unix command line. Supported Languages: DE, FR, EN -
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The sequence alignment task in MAGI (magi.ucsd.edu) is based on the miRanda algorithm, but we redesign the miRanda algorithm on GPU by taking its advantages of massively parallel computing and extra high memory bandwidth using using NVIDIA’s Compute Unified Device Architecture (CUDA). The CUDA-miRanda implementation is a fast microRNA target identification algorithm that aligns short nucleotide sequences (i.e., < 32 nucleotides) against longer reference sequences (e.g., 20k nucleotides). It has the ability to report multiple alignments and the corresponding traceback sequences for any given query-reference pair with up to 166x speedup on 4 GPUs compared to regular CPUs.
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ALCHEMY is a genotype calling algorithm for Affymetrix and Illumina products which is not based on clustering methods. Features include explicit handling of reduced heterozygosity due to inbreeding and accurate results with small sample sizes
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GXP is a parallel/distributed shell, plus a parallel task execution engine that runs your Makefile in parallel on distributed machines. Very easy to install (no need to compile. install it on YOUR machine and use it on ALL machines).
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FASTCUDA
Execution of CUDA programs on a Heterogeneous FPGA-based Architecture
FASTCUDA methodology proposes the use of CUDA, a Graphical Processing Unit (GPU) language which exposes parallelism at source code in a FPGA hardware acceleration environment.The FASTCUDA toolset splits, with minimal user intervention, application's code into two parts: one that will be compiled and executed as parallel software in an embedded Multi-core, and another that will be synthesized and implemented with multiple special-purpose accelerators in hardware. -
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Moody Parallel n-body Framework
A framework to enable development of n-body models
A framework to enable development of n-body models that provides parallel algorithms for particle motion and a comprehensive particle management system. This framework is the first stage of an effort to build a distributed n-body model capable of modelling very large scale distributed particle systems. The current iteration is a complete implementation of a model capable of running on an SMP computer -
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gpgmpi
An GPGMP in C++/OpenCL with improved time step algorithm
The need for speed is always a challenge for large-scale stochastic simulation. This software is based on a parallel stochastic simulation algorithm already implemented on Graphics Processing Unit (GPU) for inhomogeneous reaction-drift-diffusion systems. We suggest an improved choice of time step which turns out to be almost 3 or even more times fast with nearly identical accuracy. The software is now completely implemented in C++ and OpenCL which only depends on boost library and GPU vendor’s OpenCL SDK. ... -
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PPSeq: Parallel NGS Analysis
Parallel Processing for Next-Generation Sequencing (NGS) Analysis
...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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Parallel HRRT Deconvolution is a multithreaded ImageJ plugin for motion correction of PET brain images.
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GENIE (GEne-geNe IntEraction)
GPU based Parallel Gene-Gene Interaction Analysis
Gene-gene interaction in genetic association studies is computationally intensive when a large number of SNPs are involved. 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... -
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...Using ZDL you can download in only one action from many services for file hosting and video streaming. ZDL is a bash script and depends on Axel, which is automatically installed. Using proxies, ZDL can download files in parallel and, using Axel, it can accelerate downloads and automatically recover and complete them if interrupted. Code: http://git.savannah.nongnu.org/cgit/zdl.git
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Parallel Super-Resolution is a multithreaded ImageJ plugin for super-resolution. Super-resolution is an image fusion and reconstruction problem, where an improved resolution image is obtained from several geometrically warped, low resolution images.
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...The scheme is aimed at maximizing the productivity (number of subjects processed per unit time) for the use case of research projects with datasets involving many acquisitions. The scheme combines the already existing GPU-accelerated version of the FS workflow with a task-level parallel scheme supervised by a resource scheduler. This allows for an optimum utilization of the computational power of a given hardware platform while avoiding problems with shortages of platform resources. This software is provided without any warranty and acording to the FreeSurfer License.
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grn_inference_multigpu
This project is a exhaustive search algoritm for multiple GPUs
...Among the search algorithms already proposed, there is the exhaustive search where the best feature subset is returned, although its computational complexity is unfeasible in almost all situations. The objective of this work is the development of a low cost parallel solution based on GPU architectures for exhaustive search with a viable cost-benefit. We use CUDA , a general purpose parallel programming platform that allows the usage of NVIDIA GPUs to solve complex problems in an efficient way. -
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PCramer
Dense linear solver utilizing Cramer's rule in parallel
This code provides a linear solver based on a parallel application of Cramer's rule. The programming was done in 'C' leveraging the MPI-CH2 libraries for message passing between nodes. This implementation is for dense linear systems and all calculations are done with doubles. -
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17th Parallel
Subspace/Continuum zone 17th Parallel
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hobipb
a higher-order boundary integral Poisson-Boltzmann solver
...To maintain the desired accuracy, four-point Gauss-Radau quadratures are used on regular triangles and sixteen-point Gauss-Legendre quadratures together with regularization transformations are applied on singular triangles. We take advantage of the embarrassingly parallel feature of boundary integral formulation, and parallelize the schemes with the message passing interface (MPI) implementation. REFERENCE: W.H. Geng, Parallel higher-order boundary integral electrostatics computation on molecular surfaces with curved triangulation, J. Comput. Phys., 241, 253-265 (2013). -
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OpenFOAMCluster
Manual to build cluster to run OpenFOAM with parallel processing
A simple guide written in slightly humorous way to build computer cluster that can be used to run OpenFOAM software with parallel processing. It is hopeful that this guide can help other fluid dynamics researchers to run OpenFOAM software much faster. -
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Musket - short read error corrector
a parallel short-read error corrector for Illumina sequencing
...Our performance evaluation results, in terms of correction quality and de novo genome assembly measures, reveal that Musket is consistently one of the top performing substitution-error-based correctors. In addition, Musket is multi-threaded using a master-slave model and demonstrates superior parallel scalability compared to all other evaluated correctors as well as a highly competitive overall execution time.
