Showing 182 open source projects for "git:/git.code.sf.net/p/docfetcher/code"

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  • 1
    Javamony

    Javamony

    A Student's Approach to the Phylogenetic Problem

    ...Not meant as a competitive phylogenetic inference program, Javamony is an opportunity for me to acquire the Java language while learning to address and solve fundamental problems in phylogenetics. Therefore, for my own educational benefit, all code is original. Of course, there are probably a good deal of mistakes as well. I distribute Javamony, as I did Pysimony, hoping that it will be of educational value to someone else or at least vaguely amusing. Upcoming features will be: - Support for Amino Acid sequences - Support for additional file formats (e.g. Nexus) - Multithreading - Additional scoring methods (e.g. maximum likelihood)
    Downloads: 0 This Week
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  • 2

    samsn

    A tool to handle multi-stage mass spectrometry data

    The source code for SAMSN can be found in github at https://github.com/miquelrojascherto/samsn
    Downloads: 0 This Week
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  • 3
    MIDA

    MIDA

    Mitochondiral Infectious Damage Adaptation (MIDA) model of aging

    ...Please, send email to thilo.figge<at>hki-jena.de to request a copy of the source code.
    Downloads: 0 This Week
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  • 4
    SmithWaterman

    SmithWaterman

    Fast local sequence alignment for the masses!

    MOVED TO GITHUB: https://github.com/noporpoise/seq-align An implementation of the Smith-Waterman local sequence alignment algorithm. See our sister project global alignment using Needleman-Wunsch: http://sourceforge.net/projects/needlemanwunsch/
    Downloads: 3 This Week
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    Securden Privileged Account Manager

    Unified Privileged Access Management

    Discover and manage administrator, service, and web app passwords, keys, and identities. Automate management with approval workflows. Centrally control, audit, monitor, and record all access to critical IT assets.
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  • 5

    Clinical Evidence Detector

    Detector of clinical evidence

    This is a Python program based on the NegEx algorithm that detects the polarity of the clinical evidence in clinical random trials. If you use this code please cite this paper: P. Davis-Desmond and Diego Mollá. Detection of Evidence in Clinical Research Papers (2012). Australasian Workshop On Health Informatics and Knowledge Management (HIKM 2012), Melbourne, Australia. http://www.ics.mq.edu.au/~diego/publications/hikm12.pdf
    Downloads: 0 This Week
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  • 6
    This is a Java-based project for complex event extraction from text and co-reference resolution. Currently the code can read BioNLP shared task format (http://2011.bionlp-st.org/) and i2b2 Natural Language Processing for Clinical Data shared task format (https://www.i2b2.org/NLP/DataSets/Main.php). Event extraction includes finding events and the parameters for an event in a text. The method is based on SVM but other ML algorithms can be adopted.
    Downloads: 0 This Week
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  • 7

    SVGMap

    Open source web tool to help you in the data visualisation

    SVGMap is an open source web tool to help you in the visualisation of experimental data associated to some graphical representation. More at : 1. Project website http://bg.upf.edu/svgmap 2. Reference : Xavier Rafael-Palou, Michael P. Schroeder, and Nuria Lopez-Bigas SVGMap: configurable image browser for experimental data Bioinformatics 2011 : btr581v1-btr581.
    Downloads: 0 This Week
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  • 8
    miRDeep-P
    miRDeep-P,miRDP for short, is a computational tool for analyzing the microRNA (miRNA) transcriptome in plants.
    Downloads: 1 This Week
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  • 9
    A Generalized Combinatorial Approach for Detecting Gene-by-Gene and Gene-by-Environment Interactions
    Downloads: 1 This Week
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  • 10
    CALBC
    The code here is a parser for CALBC corpus into Java object.
    Downloads: 0 This Week
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  • 11

    clinicalStudyTracker

    Clinical study tracker tracks case study members through activities.

    Developed at Medical Research Council UK to meet a common clinical trial need to track various types of clinical data. Users log dates of completed tasks against participant ID. Simple, useable, reduces lost data! Makes graphical progress reports.
    Downloads: 0 This Week
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  • 12
    Scanner based Bioparsers
    Parsers for biological data based on scanner generators like Flex (C), Re2c(C), Jflex (Java) and Ifickle (Tcl). This scanner generators are providing easier maintainance, development and higher speed than hand written scanners. Scanner output is SQL.
    Downloads: 0 This Week
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  • 13
    GEAX is a Java application used to visualize and analyze cross-species gene expression microarray data.The program allows comparisons based on fold-change, p-value, quantile matching, or a combination of criteria.
    Downloads: 0 This Week
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  • 14
    FastPval is multiple stage p-value computing software that computes empirical p-values from a large set of permutated/resampled background data.
    Downloads: 0 This Week
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  • 15
    The Protein Geometry Database hosts the development code for a flexible database for searching protein geometry, as well as a library for accessing this data for protein modeling & refinement programs.
    Downloads: 1 This Week
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  • 16
    The Xholon project explores: software as systems of linked nodes, organized hierarchically. The Xholon toolkit supports this back-to-basics approach, and demonstrates practical benefits through examples from numerous domains.
    Downloads: 0 This Week
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  • 17
    Foad (EKG Processing)
    ...Finding patient disease started by taking Fourier transform (FFT) from input signal and extract a single cycle. Based on some heuristic algorithm the most important feature like P , Q , R , S , T captured and feed to trained neural network. and so the final decision made by CNN library. As mentioned before this software also capable do some image processing on scanned paper to lower the final costs.
    Downloads: 0 This Week
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  • 18
    """ E-Cell's source code repository has moved to GitHub! https://github.com/ecell The development of E-Cell now continues on GitHub. The Subversion repository was abandoned. """ E-Cell System is an object-oriented software suite for modeling, simulation, and analysis of large scale complex systems such as biological cells. It allows many components driven by multiple algorithms with different timescales to coexist in a model.
    Downloads: 1 This Week
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  • 19
    Perl code scafflod for the automatic execution of main Next Generation Sequencing data processing and analysis.
    Downloads: 0 This Week
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  • 20

    ChiBE

    Chisio BioPAX Editor

    ...ChiBE converts BioPAX graphs into process diagrams where complexes and compartments are represented with compound nodes. !!! For latest version, please see !!! http://code.google.com/p/chibe
    Downloads: 0 This Week
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  • 21
    MOLGENIS can be used to generate databases for life science experiments (micrroarray, mass spectrometry, genomics) having a web user interface, csv exchange format, and programmatic interfaces (web services, rest, and r-project). See NatRevGen 8.
    Downloads: 0 This Week
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  • 22
    SynBioLib -- your toolkit for synthetic biology applications. SynBioLib aims to establish a platform on which the Synthetic Biology community can develop and share code that is common to many tasks and programs.
    Downloads: 0 This Week
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  • 23
    The Blue Obelisk is a group of scientists driven by a belief in Open Source, Open Standards and Open Data, expressed in code, data, algorithms, specifications, tutorials, demonstrations, articles and anything that helps get the message across.
    Downloads: 0 This Week
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  • 24
    File Host and Sample Code for Shervin Emami's website at http://www.shervinemami.co.cc/
    Downloads: 0 This Week
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  • 25
    Source code for the Chemical Informatics and Cyberinfrastructure Collaboratory project.
    Downloads: 0 This Week
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