Showing 821 open source projects for "gnu/linux"

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  • 1

    LibppGam

    pp->gamma cross sections parametrization

    This library contains the parametrization of pp->gamma cross section functions based on Phys.Rev. D90 (2014) 12, 123014 (astro-ph/1406.7369) work. The functions are written in Python, Fortran and Matlab. Please, if you use this library DO NOT reference to this webpage, instead reference to Phys.Rev. D90 (2014) 12, 123014 (astro-ph/1406.7369), "Parametrization of gamma-ray production cross-sections for pp interactions in a broad proton energy range from the kinematic threshold to PeV...
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  • 2

    PAMGuide

    An analysis tool in MATLAB and R for acoustic habitat characterisation

    PAMGuide is acoustic analysis software for the characterisation of the acoustic environment from sound recordings. PAMGuide can be used to produce calibrated spectrograms and statistical analyses of sound levels, and is provided in both MATLAB and R. A Tutorial on getting started with PAMGuide can be downloaded here: http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12330/suppinfo PAMGuide was published as supplementary material to the following Open Access journal...
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  • 3
    Ymap - Yeast Mapping Analysis Pipeline

    Ymap - Yeast Mapping Analysis Pipeline

    Pipeline for large-scale genome changes analysis of genome datasets.

    The active use repository has migrated over to: https://github.com/darrenabbey/ymap The repository here was errantly created with some large binary files included. Attempts to extract the files from the history here have failed. A copy of the history was successfully scrubbed and then hosted at github. -------- Eukaryotic pathogens have complicated and dynamic genomes. To facilitate analysis of copy number variations (CNV), single nucleotide polymorphisms (SNPs), and loss of...
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  • 4
    C++, Matlab and Python library for Hidden-state Conditional Random Fields. Implements 3 algorithms: LDCRF, HCRF and CRF. For Windows and Linux, 32- and 64-bits. Optimized for multi-threading. Works with sparse or dense input features.
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  • 5

    LWPR

    Locally Weighted Projection Regression (LWPR)

    Locally Weighted Projection Regression (LWPR) is a fully incremental, online algorithm for non-linear function approximation in high dimensional spaces, capable of handling redundant and irrelevant input dimensions. At its core, it uses locally linear models, spanned by a small number of univariate regressions in selected directions in input space. A locally weighted variant of Partial Least Squares (PLS) is employed for doing the dimensionality reduction. Please cite: [1] Sethu...
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  • 6
    Cell decomposition is one of the first applicable solution for path planning - robot path planning. The algorithm aims to find free areas (cells not occupied by obstacles) in the configuration space, and build a graph of adjacency for these cells.
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  • 7

    MoTrack

    Matlab GUI for motion tracking

    MoTrack is a graphical user interface for Matlab. It can be used to track the 2D motion of any object in digital videos. In manual mode the object coordinates are captured by mouse clicking on the objects position in each video frame. Automatic motion tracking is possible using reflective markers or any kind of markers that have high contrast to the surroundings.
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  • 8

    CupidTool

    Cupid: simultaneous reconstruction of miRNA-target and ceRNA networks

    Chiu et. al., Genome Research 2014 Cupid is a method for simultaneous prediction of miRNA-target interactions and their mediated competitive endogenous RNA (ceRNA) interactions. We showed that our integrative approach significantly improves on miRNA-target prediction accuracy as assessed by both mRNA and protein level measurements in breast cancer cell lines. Cupid is implemented in 3 steps: Step 1: re-evaluate candidate miRNA binding sites in 3’ UTRs, as inferred by TargetScan,...
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  • 9
    Matlab/Octave implementation of the 2D Rigorous Coupled Wave Analysis
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  • 10
    An implementation of the Kernel-based Orthogonal Projections to Latent Structures (K-OPLS) method for MATLAB and R. The supplied functionality includes e.g. cross-validation, kernel parameter optimization, model diagnostics and plot tools.
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  • 11
    A community repository to develop Commodity Grid (CoG) Software for the access of Grids, through high level interfaces. The main repository is maintained at http://www.cogkit.org
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  • 12
    Linux ERT target controls code generation from Simulink for computer based on MPC5200 and Linux. The target contains support for CANopen via Simulink blockset which integrates the CANopen driver to the generated code.
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  • 13
    AVRS performs spatial 3D-sound processing allowing the arbitrary placement of sound source in auditory space. The main goal is to develop a genuine experimental flexible platform, that runs in a general-purpose architecture computer (standard hardware and software).
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  • 14
    OpenFlux2 is an extended version of OpenFLUX (https://sourceforge.net/projects/openflux/) - the modern MATLAB-based modelling software for 13C flux analysis (MFA). The following features were implemented in OpenFLUX2, which were not present in original software: integrated support for calculation and analysis of parallel labeling experiments (PLE), extended statistical analysis of parameter estimation results, calculation of fluxes and measurements correlation, structural identifiability...
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  • 15
    Global Land Use and technological Evolution Simulator.
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  • 16

    MatPicarro

    Load and manipulate Picarro data files with Matlab or GNU Octave

    A collection of m-files to load and manipulate Picarro data files with Matlab or GNU Octave.
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  • 17

    AeroDataBase

    Aircraft aerodynamic database

    A collection of aerodynamic data in HDF format. The data is used in the semiempirical models of aircraft aerodynamic coefficients. Reference: Aircraft Dynamics: From Modeling to Simulation Marcello R. Napolitano, Wiley, 2012. http://eu.wiley.com/WileyCDA/WileyTitle/productCd-EHEP002021.html
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  • 18
    MRI-PDQ:Phase Detection & Quantification

    MRI-PDQ:Phase Detection & Quantification

    Detect sphere-shaped paramagnetic deposits in MRI datasets

    Moved to http://parkermills.github.io/MRI-PDQ/
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  • 19

    Tail Probability Calculator

    Tail probability calculator for continuous random variable

    A suite of Matlab functions that calculate the tail probability / cdf / pdf / quantile of linear combination of random variables in one of the following classes: (1) symmetric random variables with support on the real axis (normal, Student's t, uniform and triangular); (2) random variables with support on the positive real axis (chi-squared and log-Lambert W x chi-squared distributions; inverse gamma distribution is temporarily disabled due to numerical issues).
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  • 20
    Locaviewer

    Locaviewer

    Sistema de vídeo distribuido para Centros Infatiles

    Proyecto para la IV Edición del Desafío Tecnológico planteado en la ETSIIT de la Universidad de Granada. Nuestro grupo propone una solución para que padres puedan ver en tiempo real a sus hijos mientras se encuentran Centros Infantiles. Nuestro producto se diferencia de otros en el que el cambio de cámara es automático, realizando para ello una triangulación de los niños.
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  • 21
    MRI-PSM: Phase Slope Magnitude Imaging

    MRI-PSM: Phase Slope Magnitude Imaging

    Generate positive-contrast images emphasizing magnetic field variation

    Moved to: http://parkermills.github.io/MRI-PSM/
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  • 22
    GoIFISH

    GoIFISH

    for the semi-automated analysis of IFISH images

    GoIFISH has been developed for the analysis of IFISH (Immunofluorescence + Fluorescence in situ Hybridisation) images, performing nuclear, membrane and spot detection. Users can manually edit segmentation results, perform background adjustments, construct heatmaps, topology maps, and perform cell classification. All results can be exported for further analysis. GoIFISH has been developed in MATLAB, however binaries are provided to run the program outside of the MATLAB environment....
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  • 23

    QUDeX-MS

    Hydrogen/deuterium exchange estimation for isotopic fine structure MS

    Hydrogen-deuterium exchange coupled to mass spectrometry permits analysis of structural dynamics, stability, and molecular interactions of proteins. Resolving isotopic fine structure during mass spectrometry has been recently demonstrated to allow direct detection and quantification of deuterium incorporation distinct from peaks corresponding to non-deuterium incorporated natural abundance heavy isotopomers. Here, we present a graphical tool that allows for a rapid and automated estimation...
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  • 24
    GridMos

    GridMos

    GridMos, mosaicing tool (in MATLAB) to improve cell counting.

    Nowadays, the manual cell counting, performed directly by looking through the microscope’s oculars by using a tally counter and a hemocytometer, still is the gold standard method to count Live&Dead cells (Trypan Blue is typically used to stain the dead cells). However, performing the cell counting by tagging the cells in a steady image mosaic increases the reliability of the counts performed. Unfortunately, to build a mosaic of a hemocytometer's grid shows some problem due to the repeated...
    Downloads: 1 This Week
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  • 25

    Migration of cells in a social context

    Model of the migration of 3T3 fibroblast cells in social context

    Code updated. There were a few errors in the physical model of the concentration field of secreted chemokine surrounding each cell, together with a few coding errors. All have been corrected, the model refitted, and all simulations presented in the paper repeated. Results from this corrected model are on par with the published results. See pdf file for details.
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