Showing 2809 open source projects for "research"

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  • 1

    X-Freq

    X-Ray Reflectivity Frequency Analysis

    Analyze the thicknesses of a sample from an x-ray reflectivity dataset using Fourier Transform techniques.
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  • 2

    Webapp

    A web interface to the SnowyOwl gene prediction pipeline

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  • 3
    Python sniffer that identifies interactive SSH sessions. It detects when an intruder uses SSH with: a wrong password, a good one or with a password cracking program. It uses two techniques: SSH client's banner identification and SSH session total by
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  • 4

    RASPnmr

    Protein NMR backbone resonance assignment

    RASP uses structure-based chemical shift predictions to solve the backbone resonance assignment problem in protein NMR spectroscopy. This enables rapid determination of highly accurate assignments on the basis of minimal experimental datasets, even for spectroscopically challenging proteins. RASP takes as input spin systems assembled on the basis of an arbitrary set of conventional triple-resonance NMR experiments. Uniquely, RASP is capable of extensive assignments even in the abscence of...
    Downloads: 1 This Week
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  • 5
    QtoNum

    QtoNum

    python calculus library with imprecise and precise representations

    QtoNum is a calculator for qualitative values (-, +), intervals and crisp numbers with arbitrary precision. QtoNum also handles infinitesimals and infinites. All these types can be mixed in expressions and conversions are performed automatically. QtoNum can be used as an interactive calculator (command line) and as a calculus library.
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  • 6
    NotaBene RDF Annotation Tool is a wxPython graphical user interface. Its primary purpose is to ease the use of RDF to manually annotate electronic XML editions of left-to-right-written texts. It allows multiple views of the annotated document.
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  • 7

    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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  • 8

    Easy Software Request Manager

    lightweight web application to manage and edit software request

    Software Requests Management tool based on web technologies. Allows organizations to manage and maintain software requests. Written in python, takes advantage of the web technologies using the light and powerful django framework.
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  • 9

    ppc_sim_booke

    e500v2 simulator

    An experimental ISS for freescale's e500v2 core. It is meant to simulate only cpu and memory subsystem and is purely intended for academic/learning purposes only.
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  • 10

    EXEHDA-AD

    Accessing EXEHDA's contextual information from Android devices.

    ...The central characteristics of the middleware EXEHDA were too revised. The EXEHDA-AD modeling was evaluated by prototyping, which presented satisfactory results, indicating positively by the continuity of the research efforts in this direction.
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  • 11

    nwbas2ecce

    nwbas2ecce converts nwchem basis set files to the ECCE format

    The basis sets included with ECCE have -- as far as I can tell -- not been updated for many years. In addition, many of the newer basis sets that come with nwchem aren't included, such as the def2- series. nwbas2ecce is a python script that aims to automate as much as possible of the conversion process of a nwchem basis set file into the files necessary for ECCE to included it in the basis set tool. The process isn't completely automatic, but I also believe that it shouldn't be to...
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  • 12
    Abandoned version of qbc. DOES NOT WORK properly
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  • 13

    SLiMScape

    A Protein Short Linear Motif Analysis Plugin for Cytoscape

    SLiMScape adds Short linear motif discovery tools to Cytoscape, transforming it into a SLiM discovery platform. A tutorial is available at the following URL: http://bioware.ucd.ie/slimscape/
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  • 14
    A High-Order Multi-Variate Approximation Scheme for Arbitrary Data Sets, C implementation of the method described in http://web.mit.edu/qiqi/www/paper/interpolation.pdf, with Python and Fortran interfaces.
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  • 15
    An active filter design assistant. Electrical engineers can use it to design and simulate analog active filters.
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  • 16

    hrefinder

    Detection of homologous recombination events from SNP data

    This software detects homologous recombination events (HREs) from SNP data. Based on SNP alleles calls and locations, it breaks the genomes into locally colinear blocks, and looks for cases where SNPs do not agree with the vertical pattern of inheritance in a phylogeny. It applies a dynamic programming algorithm to model whether changes within a block are likely a result of mutations, sequencing errors, or HRE. We use information from the nearby SNPs, so that if 1-2 alleles in a series of...
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  • 17
    Physical modelling of water transport in plants
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  • 18
    A collection of pure Python algorithms and data structures
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  • 19
    HdfUtil is a collection of utilities to ease the exchange of HDF5 files between C++, Matlab and Python. The long term goal is integration into the main HDF5 distribution.
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  • 20

    PyRoboSim2D

    Python+Pygame robot simulator 2D

    2D robotic simulator in Python 2.x, tested in 2.6 and 2.7, under Win7(64) and Ubuntu 10.04 (Lucid). Needs the matching version of Pygame installed! (www.pygame.org) Download the .py file and two .bmp files: -->back2_800_600 for background -->any of the robo1.bmp through robo4.bmp for robot image (different colors). The map of the "room" can be changed by modifying the list of obstacles. Read more in ReadMe.txt and in the .py file comments.
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  • 21
    LibCPIXE is a library for simulation of Particle Induced X-ray emission spectra.
    Downloads: 1 This Week
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  • 22
    MyNook

    MyNook

    A machine learning system for supervised document classification

    An open source system for supervised document classification based on statistical machine learning techniques. On the contrary of the state of art classification techniques, MyNook just requires the title of the document, not the content itself.
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  • 23

    ReferenceFree

    Scripts for reference free genomic analysis

    These are Python scripts plus C/C++ programs for automating the reference free genomic analysis described in: Kua C-S, Ruan J, Harting J, Ye C-X, Helmus MR, et al. (2012) Reference-Free Comparative Genomics of 174 Chloroplasts. PLoS One 7(11). http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0048995 Analytical concept conceived by CHCannon and CSKua. Original script written in Mathematica by CHCannon.
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  • 24
    GIPC

    GIPC

    Geographical IP Correlation

    TL;DR Version: I wrote a tool called GIPC (short for Geographical IP Correlation and pronounced Gypsy) which takes a list of IP address and returns the Geographical information you select based on the MaxMind.com GeoCity Database. The exe requires 2 inputs: The IP file (one IP per line) MaxMind GeoCity database – This can be downloaded HERE:http://geolite.maxmind.com/download/geoip/database/GeoLiteCity.dat.gz Please read more on my blog:...
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  • 25

    RNA-Seq-Simulator

    Realistic simulation of RNA-Seq short reads

    A suite of Python programs to produce simulated Illumina RNA-Seq reads with a high level of realism. The starting positions of the reads and the distributions of read errors and quality codes are all empirically derived from real RNA-Seq datasets. The suite includes Python scripts to prepare the empirical read creation probability and read error distribution tables, and to generate and postprocess the simulated reads.
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