Showing 114 open source projects for "using class net.sourceforge.jtds.jdbc.driver"

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  • 1
    CNV Workshop is a web-enabled platform for analyzing genome variation such as copy number variation (CNV). Learn about CNV Workshop in our associated BMC Bioinformatics manuscript: http://www.biomedcentral.com/1471-2105/11/74
    Downloads: 9 This Week
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  • 2
    Perl client for das fetching using asynchronous i/o. originally supported by lwp::parallel::useragent, now by www::curl::simple
    Downloads: 0 This Week
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  • 3
    RefineHMM refines an original hidden Markov model (HMM) to find an optimal fit against the evolutionary group that the HMM models, and it does this using through iterative database searches and incremental subsequent adaptation of the seed set.
    Downloads: 0 This Week
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  • 4
    The development and curation of a range of XML-based tools for using Chemical Markup Language (CML), including XSD XML Schemas for validation, datatyping and constraining CML documents and XSLT Stylesheets for transforming, filtering and rendering.
    Downloads: 2 This Week
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  • 5
    This is a utility to convert a set of fasta formatted sequences along with output from ELAND or SOAP (and other next generation sequence alignment in due time) to make them viewable using eagleview.
    Downloads: 0 This Week
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  • 6
    Harmonize + gene = Harmogene Efficiently create sets of genome annotations ("consensus annotations") from one or more source genomes using simple rules and and apply those annotations to one or more target genomes. See the Trac page for more info.
    Downloads: 0 This Week
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  • 7
    RAINIER: Rapid Automated Inference of Nucleic-Acid Interaction Energy using Refinement RAINIER is a protein simulator that can predict the interface structure of DNA- and RNA-binding proteins, using statistical and physical techniques.
    Downloads: 0 This Week
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  • 8
    The Chemical Structures Project is a set of 3D structures of molecules in CML format. Each file contains also some physical properties, which can be access using a web browser or a CML file reader.
    Downloads: 0 This Week
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  • 9
    ANT is a lightweight implementation in C of a kind of artificial neural net called Multilayer Perceptron, which uses the backpropagation algorithm as learning method. The package includes an introductory example to start using artificial neural nets.
    Downloads: 0 This Week
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  • 10
    Using the CUDA API this project modifies the AutoDock software to run in parallel on NVIDIA GPUs. Users will be able to download and compile the code and use AutoDock on CUDA capable Graphics Cards. Autodock is located at http://autodock.scripps.edu/
    Downloads: 0 This Week
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  • 11

    SrsUrlApi

    Client library to access Sequence Retrieval System (SRS) servers.

    A Perl client library to access Sequence Retrieval System (SRS) servers using the REST/CGI API provided by SRS.
    Downloads: 0 This Week
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  • 12
    RReportGenerator aims to provide a simple and user-friendly multi-platform graphical user interface (GUI) allowing to run routine statistical analysis using R via predefined analysis scenarios to produce reports in pdf-format.
    Downloads: 0 This Week
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  • 13
    ArrayPipeLine is a web-based Laboratory Information Management system, using MySQL, Perl CGI and R. It enables high-throughput analysis of microarray data, providing automation of data handling, and rapid creation and implementation of analysis pipelines
    Downloads: 0 This Week
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  • 14
    A novel algorithm to layout the contigs with more than one reference genomes at a time using global searches
    Downloads: 0 This Week
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  • 15
    sbmlop is a command-line utility to create, view and manipulate SBML (the Systems Biology Markup Language). It is ideally suited for operating on large batches of SBML files, and can extract and modify information using regular expressions.
    Downloads: 0 This Week
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  • 16
    BushMan is a web interface and a quality assurance tool for biological sequence assembly. It is a small application that helps process chromatograms, and it assembles using Phred and Phrap. It produces a FASTA formatted consensus sequence.
    Downloads: 0 This Week
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  • 17
    GeneIndex is a parallel program using MPI. It finds frequencies and positions of all words of a certain length in a DNA sequence. Large genome will be an ideal target of GeneIndex.
    Downloads: 0 This Week
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  • 18
    Autoprime

    Autoprime

    Automated primer design using EnsEMBL

    AutoPrime allows to rapidly design primers for real-time PCR measurement of eukaryotic expression. By connecting to the EnsEMBL database gene structure information is used to find primers spanning exon borders. This way only expressed sequences are captured. Additionally mispriming on repetitive regions can be avoided using information from RepBase.
    Downloads: 0 This Week
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  • 19
    FORce based Cluster Editing (FORCE) is a Java software heuristically solving the graph cluster editing problem on weighted edges using BLAST E-values. It further provides a training mode for heuristic parameter estimation.
    Downloads: 0 This Week
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  • 20
    Experimental Lindenmayer System generator, in 3D using OpenGL. Used for modeling the fractal growth processes of plants.
    Downloads: 0 This Week
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  • 21
    hmm2gviz is a tool used for converting hidden Markov models generated by HMMER into a graph visualization using Graphviz.
    Downloads: 0 This Week
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  • 22
    RStatServer is a system for quickly developing and deploying web applications that integrate statistical computations and graphics. It is built using the Zope web application develeopment system and the open-source statistical data analysis environment R
    Downloads: 0 This Week
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  • 23
    Cellontro models and simulates cells, other biological entities, and biochemical networks. Specify your models using XML and Java, or SBML. Cellontro is now completely contained within the Xholon sourceforge project.
    Downloads: 0 This Week
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  • 24
    Disease Gene Profiler (DGP) comprises of a set of (bioinformatics) tools that can be used to identify the genes underlying susceptibility to common multifactorial diseases (such as diabetes, asthma and cancer) using freely available datasources.
    Downloads: 0 This Week
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  • 25
    LineageEvolver is a simulation system for molecular evolution. Sequence evolution is simulated using modular processes such as substitutions, gene duplication/death, horizontal gene transfer, and more.
    Downloads: 0 This Week
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