Search Results for "c code compiler" - Page 14
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Showing 767 open source projects for "c code compiler"
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parSRA
Portable Framework for the Parallel Execution of Short Read Aligners
...It uses the following techniques in order to improve scalability: 1) a fast splitting of the input reads using the FUSE kernel module available in most of current Linux distributions; 2) a balanced on-demand distribution of the reads based on the shared locks of UPC++, an extension of C++ for parallel computing that follows the Partitioned Global Address Space (PGAS) paradigm. parSRA is portable as its configuration file allows the users to parallelize the execution of existing SRA tools without the need to modify the source code of parSRA or the aligner. -
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Ichnaea
Performance Timing Tools
Ichnaea is a set of tools that aid in collecting and tracking parameters and timings for parallel applications. The Performance Modelling Timing Module, PMTM, is a library that wraps system timing calls to abstract these from code developers and aid portability. It also has functionality to store parameters and print those, along with the timing information to a comma separated variable file. The Performance Modelling Analysis Tool, PMAT, is coming soon. This is able to read in and... -
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MD PnP | OpenICE
Open Source Integrated Clinical Environment
As of 2015-06-23, this project may now be found at http://www.github.com/mdpnp/mdpnp. A prototype reference implementation of the standard for the Integrated Clinical Environment (ASTM F2761-2009) -
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C/C++ Program Perfometer
The program enables to get performance of C/C++ program for any metric
The program enables to get performance of C/C++ program and separated pieces of code for any metrics (for instance : time, memory, metrics defined by user etc.). The measurement results are represented in detailed/summary reports. Latest Version: 2.10 -
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ParsNIP
Parser for PTRAC files produced by MCNP
ParsNIP takes the ascii PTRAC files produced with MCNP radiation transport code and parses into a one-line = one-event format which can then be further processed in MATLAB, Excel etc. if necessary. -
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Virus QSP Modeling
C++ and Python code for simulating RNA virus replication
Stochastic simulation model of poliovirus Sabin-to-Mahoney genetic state transition (C++ code). Models genotypes, virus populations, and quasispecies cloud. Simulates replication error and copy-choice recombination. Various parameters guiding the model are user-specified. Python code post-processes simulation output to produce report files. -
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RANGE: produce random genetic transcription networks in the NEMO language, which when compiled outputs models in Systems Biology Markup Language. Generate synthetic microarray data, or use NEMO alone to SBML-ize a network, or visualize it in cytoscape.
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CUDAlign
CUDAlign is a tool that aligns huge DNA sequences in CUDA capable GPUs
CUDAlign is a tool able to align pairwise DNA sequences of unrestricted size in CUDA GPUs, using the Smith-Waterman algorithm combined with Myers-Miller. It produces the optimal alignment of 1 million base sequences in 45 seconds using a GTX 560 Ti. Many optimizations are being developed for this software. Look at the following papers for detailed information: [1] Edans Sandes, Alba Melo. Retrieving Smith-Waterman Alignments with Optimizations for Megabase Biological Sequences using GPU.... -
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NexusDataLink
Connect, monitor and control your (embedded) systems remotely. m2m/IoT
Connect, monitor and control your systems or embedded devices remotely (m2m/IoT) - for example your Raspberry Pi. The communication interface is defined in XML automatically providing a REST interface. NexusDataLink integrates smoothly in existing software or firmware and significantly reduces connection- or communication-related source code. -
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steam-sim
An accurate, scalable, and energy-aware simulator for WSNs
STEAM-Sim establishes a hardware/software/network co-simulation of wireless sensor networks. Original C code is used in simulation. The code is natively executed by the cpu where the simulation is run. The time annotation engine annotates the C source code used for simulation with the timing information as if the code is run on a microcontroller. The annotation process is fully automated. Hardware models are developed using the PAWiS framework and reflect the timing, functionality, and energy-consumption of real-world hardware such as a CC2420 radio transceiver. ... -
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The HART (Hardware Access in Real-Time) Toolbox can be used to generate Scicos-blocks for hardware that have a C/C++ interface. The blocks can be used under Linux for soft and hard real time tasks (RTAI). Blocks are provided for DAQ (COMEDI).
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This tool is made to score machine translation performance with the TER metric. This code is based on Snover's algorithm.
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ANT.1D
Quantum transport for tight-binding and ab initio Hamiltonians
ANT.1D is a stand-alone quantum transport code for essentially one-dimensional setups described by tight-binding or ab initio Kohn-Sham Hamiltonians obtained from other codes working with atomic basis sets (Gaussian, Crystal,SIESTA). Interfaces with Crystal and Gaussian codes are available. Electrodes are described either by nanowires of finite thickness or Bethe lattice electrodes. -
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Shoal
A lot of fish in a shoal, in a gigantic scientific ocean.
Ours organization website GCModeller.org is coming online soon! Shoal Shell is the sub project for the "genome-in-code"(http://code.google.com/p/genome-in-code/) virtual cell modelling project of the bacteria Xcc 8004. Shoal Shell aim at provide the modelling tool and the debugging tool for the GCModeller virtual cell modelling, And from the extendible library package, shoal shell can manage to accomplish the entire modelling job for any other bacteria species. Shoal Shell Project... -
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A Linux tool for the MikroElektronika (www.mikroe.com) AVRprog2 programming hardware. We have migrated to Github! https://github.com/avrprog2/avrprog2-code
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neuranep
Neural Network Engineering Platform
A parallel-programming framework for concurrently running large numbers of small autonomous jobs, or microthreads, across multiple cores in a CPU or CPUs in a cluster. NeuraNEP emulates a distributed processing environment capable of handling millions of microthreads in parallel, for example running neural networks with millions of spiking cells. Microthreads are general processing elements that can also represent non-neural elements, such as cell populations, extracellular space, emulating... -
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MPI/C++ code to generate initial conditions for cosmological simulations using multiscale gaussian random fields, based on Edmund Bertschinger's GRAFIC-2 package. Provides a replacement for both grafic1 and grafic2.
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Automatic cell lineage reconstruction
Automatic segmentation and tracking for 3D time-lapse microscopy
From Amat et al., Nature Methods, 2014*: "The comprehensive reconstruction of cell lineages in complex multicellular organisms is a central goal of developmental biology. We present an open-source computational framework for segmentation and tracking of cell nuclei with high accuracy and speed. We demonstrate its (1) generality, by reconstructing cell lineages in four-dimensional, terabyte-sized image data of fruit-fly, zebrafish and mouse embryos, acquired with three different types of... -
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LightCAS
LightCAS is very lightweigth Computer Algebra System
LightCAS is lightweight Computer Algebra System. Its size is less that 50K of compiled code. LightCAS can parse, display, evaluate and simplify mathematical expressions. It can also compute derivatives, find solutions of one or second order expressions, solve systems of equations, compute Taylor series. Its code is intended to be full configurable for most applications. -
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The target system of this project is to develop mathematically efficient program code generator from cellml like biological models described by mathematical markup languages.
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Face Recognition System
Face Recognition System Matlab source code
Research on automatic face recognition in images has rapidly developed into several inter-related lines, and this research has both lead to and been driven by a disparate and expanding set of commercial applications. The large number of research activities is evident in the growing number of scientific communications published on subjects related to face processing and recognition. Index Terms: face, recognition, eigenfaces, eigenvalues, eigenvectors, Karhunen-Loeve algorithm. -
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SOAP3-DP
Fast, Accurate and Sensitive GPU-based Short Read Aligner
...SOAP3-dp natively supports BAM file format and provides the same scoring scheme as BWA, which enables it to be integrated into existing analysis pipelines. Citation: Luo R, Wong T, Zhu J, Liu C-M, Zhu X, et al. (2013) SOAP3-dp: Fast, Accurate and Sensitive GPU-Based Short Read Aligner. PLoS ONE 8(5): e65632. doi:10.1371/journal.pone.0065632 -
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CPPQUADPACK
C++ port of QUADPACK with general function defination style.
Numerical integration package in C++. A C++ port of QUADPACK with a general function defination style to provide more flexible function parameter defination. Based on crbond C version QUADPACK(http://www.crbond.com/scientific.htm) . You can get the latest code by : git clone git://git.code.sf.net/p/cppquadpack/code cppquadpack-code -
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MICA-aligner
Next-generation sequencing short reads aligner based on Intel® MIC
Latest Code in GitHub: https://github.com/aquaskyline/MICA-aligner To better utilize MIC-enabled computers for NGS data analysis, we developed a new short-read aligner MICA that is optimized in view of MIC’s limitation and the extra parallelism inside each MIC core. Experiments on aligning 150bp paired-end reads show that MICA using one MIC board is ~4.85 times faster than the CPU-(multi-core)-based BWA-MEM and about the same speed as the GPU-based SOAP3-dp. Furthermore, MICA’s... -
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igafem
Open source 3D Matlab Isogeometric Analysis Code
...The tight coupling of CAD and analysis within IGA requires knowledge from both fields and it is one of the goals of the MIGFEM is to provide a simple-to-understand IGA FEM code. The work is funded under the FP7 Initial Training Network Funding under grant number 289361 'Integrating Numerical Simulation and Geometric Design Technology.' If you use this code or inspired by it please cite the following reference in your work: VP Nguyen, C Anitescu, S Bordas, T Rabczuk. "Isogeometric analysis: an overview and computer implementation aspects". ...
