Showing 152 open source projects for "http file"

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  • 1

    SuRankCo

    Supervised Ranking of Contigs in de novo Assemblies

    ...For more details about SuRankCo and its functioning, please see "SuRankCo: Supervised Ranking of Contigs in de novo Assemblies" Mathias Kuhring, Piotr Wojtek Dabrowski, Andreas Nitsche and Bernhard Y. Renard (http://www.biomedcentral.com/1471-2105/16/240/abstract) PLEASE NOTE, it is recommended to read the paper and the readme.txt file before using SuRankCo. Update Jun2015: * Minor changes to enable BAM support. Update Feb2014: * Added support for FASTA/SAM assemblies in addition to ACE/FASTQ(QUAL). NOTE: features of FASTA/SAM assemblies do not include BaseCount, BaseSeqmentCount and ContigQualities yet.
    Downloads: 0 This Week
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  • 2
    vHDL Obfuscator GUI

    vHDL Obfuscator GUI

    vHDL Obfuscator is an small GUI to obfuscate and reformat HDL files

    VHDL and Verilog HDL are standards languages for hardware description. Sometimes is necessary to share the source HDL file but maintaining a little level of control and protection of the intellectual property. This tool generate obfuscated code that is almost unreadable to humans, but is still readable to compilers and simulators. This tool use GHDL (https://sourceforge.net/projects/ghdl-updates/), HDLObf (https://sourceforge.net/projects/hdlobf/), Icarus Verilog (https://sourceforge.net/projects/iverilog/) and was created in Lazarus (http://www.lazarus-ide.org/)
    Downloads: 3 This Week
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  • 3

    binana

    BINANA (BINding ANAlyzer) is a python-implemented algorithm for analyz

    ...The program identifies key binding characteristics like hydrogen bonds, salt bridges, and pi interactions. As input, BINANA accepts receptor and ligand files in the PDBQT format. PDBQT files can be generated from the more common PDB file format using the free converter provided with AutoDockTools. As output, BINANA describes ligand binding. NOTE: The latest version of BINANA is now hosted at http://git.durrantlab.com/jdurrant/binana . Versions on SourceForge are not up to date.
    Downloads: 0 This Week
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  • 4
    xmipp

    xmipp

    Image processing suite for Electron Microscopy

    XMIPP is an image processing suite for 3D-reconstruction of biological specimens from transmission electron microscopy data. NOTE that stable releases (including binaries) are longer stored at Sourceforge, but are available at http://xmipp.cnb.csic.es
    Downloads: 0 This Week
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  • 5

    LiDSiM

    LImits of Detection SImulation for Microbes

    ...For more details about LiDSiM and its functioning, please see "Estimating the Computational Limits of Detection of Microbial Non-Model Organisms" Mathias Kuhring and Bernhard Y. Renard (http://onlinelibrary.wiley.com/doi/10.1002/pmic.201400598/abstract) PLEASE NOTE, it is recommended to read the paper and the readme.txt file before using LiDSiM.
    Downloads: 0 This Week
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  • 6
    Toolboxes for SPM (http://www.fil.ion.ucl.ac.uk/spm/) developed at Freiburg Brain Imaging (http://fbi.uniklinik-freiburg.de/)
    Downloads: 1 This Week
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  • 7

    YAFEMS

    Yet Another Finite Element Method Solver

    YAFEMS (Yet Another Finite Element Method Solver) is a FEM solver for Linux and WIndows that reads a MED mesh file produced by Salome (http://www.salome-platform.org/) with certain groups created into the mesh, and with the help of an input text file (.yaf), performs a 3D or 2D plane stress or plane strain analysis and creates results in plain text format and in MED format. This way a complete analysis can be carried inside Salome, where a mesh file can be created, exported and read by YAFEMS with the help of a .yaf input file and post-processed within Salome using ParaView. ...
    Downloads: 0 This Week
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  • 8

    SoNIA (Social Network Image Animator)

    Social Network Image Animator creates animations of network data

    SoNIA (Social Network Image Animator) is a Java-based package for visualizing dynamic or longitudinal network data and rendering it out as animations. The home page with examples is located at http://sonia.stanford.edu Documentation is at https://sourceforge.net/p/sonia/wiki/Main_Page/
    Downloads: 0 This Week
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  • 9

    ismrmrd

    ISMRM Raw Data File Format

    We have moved to GitHub. web: http://gadgetron.github.io code: http://github.com/gadgetron/gadgetron discussion board: https://groups.google.com/forum/#!forum/ismrmrd
    Downloads: 5 This Week
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  • 10

    PolySim

    Polymer simulation utilites

    ...It shouldn't be a problem to implement any new specific one (discrete models) 2) off-lattice monte carlo and molecular dynamics (continuous models) Latter one is rebuild of earlier version of simpatico (http://gemini.cems.umn.edu/research/morse/code/simpatico/home.php) project. Input and output are based on PDB file format which is better to visualize with pymol. For specific non-pdb input/output of 2nd program there are convertation utils also available. Programs are expected to compile in gcc under cygwin or pure linux environment. ...
    Downloads: 0 This Week
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  • 11
    CIG-P

    CIG-P

    CIG-P is a simple yet flexible data visualization tool

    CIG-P is a higher order visualization tool for AP-MS which generates intuitive circular diagrams for visually appealing final representation of AP-MS data. CIG-P can be used to compare a) different AP-MS datasets of various baits or b) a particular bait under various perturbations (lenticular section CIG-P). The output of CIG-P is a simple and intuitively easy to grasp visualization of a complex dataset. Publication: CIG-P: Cicular Interaction Graph for...
    Downloads: 11 This Week
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  • 12

    OSGC - OpenSource Geospatial Catalogue

    OpenSearch GeoSpatial Catalogue

    OSGC is an Open Source implementation of an OpenSearch GeoSpatial Catalogue compliant to OGC 10-32r3 specification, developed by EGI.eu (http://www.egi.eu/) under the ENVRI (http://envri.eu/) project. OSGC provides a catalogue engine built on top of a PostgreSQL+Postgis database, which exposes a cusmizable OpenSearch interface. Most of the application configuration can be set from the Admin web interface, while Data Administrators have a separated Dropbox interface, which ease the...
    Downloads: 0 This Week
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  • 13

    VHDL Notepad++ Plugin

    VHDL Plugin for the Notepad++ Editor

    VHDL plugin based on http://sourceforge.net/projects/nppvhdlplugin/ This version is enhanced to include: - Insert Instantiation - Insert Signals - Create Test Bench Framework - Insert Component - Make comments Doxygen compliant - Create New Behavioral/Structural Entity Template - Create New Package File Template - Insert Synchronous Process - Insert Asynchronous Process - Insert a Default Header The default header is set in the vhdlConfig.txt file.
    Downloads: 4 This Week
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  • 14
    Gpsdrive is a car (bike, ship, plane) navigation system. Displaying your position on a map and a lot of other functions are implemented. It works with vector maps from http://www.OpenStreetMap.de/
    Downloads: 1 This Week
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  • 15
    Conceptpower

    Conceptpower

    Conceptpower is an authority file service.

    Conceptpower is an authority file service, which is based on WordNet 3.0 (http://wordnet.princeton.edu) and can be extended as needed. Each entry in Conceptpower is identified by an URI, which should be used to refer to a particular entry. Conceptpower has three parts: a public search function, a management component, and a basic REST interface. The public search function provides the user with basic search functionality.
    Downloads: 1 This Week
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  • 16
    VIGOR3

    VIGOR3

    Annotation of Viral Genomes

    VIGOR is a tool for annotating coding genes in viral genomes. It was developed by Jeffrey Hoover and Shiliang Wang for The JCVI Genomic Sequencing Center for Infectious Diseases (GSCID). http://www.biomedcentral.com/content/pdf/1471-2105-11-451.pdf contact: Jeff Hoover 301-540-7858 jefhv@aol.com
    Downloads: 0 This Week
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  • 17
    FineSplice

    FineSplice

    Enhanced splice junction detection and estimation from RNA-Seq data

    ...FineSplice requires Python 2.x (>= 2.6) with the following modules installed: pysam (http://code.google.com/p/pysam/) and scikit-learn (http://scikit-learn.org/). For further details check out our publication: Nucl. Acids Res. (2014) doi: 10.1093/nar/gku166
    Downloads: 1 This Week
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  • 18

    Open PECTool

    Open PECTool - manipulate peroidic error data for Celestron mounts.

    This is clone of the Celestron PECTool used to upload, download and manipulate PEC data. It is intended to work with Celestron Nexstar mounts like NexStar GPS, NexStar GPS-SA, NexStar iSeries, NexStar SE Series, NexStar GT, Advanced-VX, Advanced-GT and CGE mounts. Communication to the hand control is 9600 bits/sec, no parity and one stop bit via the RS-232 port on the base of the hand control. To build it libnexstar version 0.11 or newer is needed, which can be found here:...
    Downloads: 5 This Week
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  • 19

    galplot

    Plot GALPROP output

    Plot package for GALPROP https://sourceforge.net/projects/galprop Plots models and data for cosmic-ray spectra, secondary/primary ratios, gamma rays, synchrotron. Includes gamma-ray source population synthesis and corresponding plots. For gamma rays, convolves models with the Fermi-LAT response. This release is to assess interest. It requires many input data files (not included) which will be made available as required. With the data provided cosmic-ray spectra and ratios and source...
    Downloads: 1 This Week
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  • 20
    An easy-to-use simulator for decentralized distributed scheduling in Clusters, Grids, and Cloud ecosystem MaGate 2.0 is now available from github! https://github.com/huangye177/magate
    Downloads: 1 This Week
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  • 21
    Nuclei

    Nuclei

    Feature rich GUI for nuclear decay schemes

    Nuclei is a software tool for the displaying of nuclear decay schemes and estimated energy spectra, the calculation of angular γ emission anisotropies, and the automated search for appropriate decay cascade properties. It uses the Evaluated Nuclear Structure Data Files (ENSDF). A description of Nuclei's functionality and results obtained using its search method was published in Nuclear Instruments and Methods in Physics Research, Section A: M. Nagl, et al., NIM A 726 (2013),...
    Downloads: 1 This Week
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  • 22

    gcr_convert

    converts cosmic-ray files from GALPROP for viewing / plotting.

    ...This program converts to fv-compatible FITS files, either from 2D to (R,z) or from 3D to (x,z) at y=0 or (x,y) at z=0, in each case for a chosen cosmic-ray species. The third axis is momentum in each case. The distribution can be viewed with fv as a colour image, contoured, output to a file etc. The program is stand-alone and requires only the cfitsio library to be installed. Build instructions are in the program header. The FITS.cc/FITS.h class used provides simple convenient access to image data, useful also for other projects. For fv and cfitsio see http://heasarc.gsfc.nasa.gov/fitsio
    Downloads: 0 This Week
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  • 23
    Specview is a Java GUI_based application for 1-D spectral visualization and analysis of astronomical spectrograms generated by a variety of observatories and instruments. Note that we no longer provide file distributions of this software. You are encouraged to visit the specview web site download page: http://www.stsci.edu/institute/software_hardware/specview/download to retrieve an installer appropriate for your platform.
    Downloads: 1 This Week
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  • 24

    galprop_propel

    GALPROP update for accurate propagation calculation

    ...Add solution_method and solution_convergence to the galdef parameter file. A test GALDEF file with these parameters is galdef_54_reltest09; the diagnostics document the accuracy of the solution. A full explanation is given in the GALPROP Explanatory Supplement http://www.mpe.mpg.de/~aws/galprop_explanatory_supplement.pdf Thanks to Deepak Khurana for requesting and testing this update. Now replaced by this project: http://sourceforge.net/projects/galprop where further updates can be found.
    Downloads: 2 This Week
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  • 25

    WSN Localisation

    Localisation system in wireless sensor networks using ns-2

    This project presents an extension to ns-2, which enables a normal user, who has basic knowledge of ns-2, to simulate localization system within a wireless network. Moreover, this project would be beneficial to researchers who want to implement new or existing localisation algorithms and anyone new to ns-2 who wish to know more about how a simulation project is built and structured. [1],[2] provide more details. References [1] A. M. Abu-Mahfouz and G. P. Hancke, GP., “ns-2 extension to...
    Downloads: 1 This Week
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