Showing 2101 open source projects for "java open source"

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  • 1
    Basic Electronical Medical Management (BEMM) is an application to control medical data of a set of patients. It is built on top of open source technologies, to provide an integration skeleton of mvn, Datanucleus, Spring, Vaadin, Acceleo technologies.
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  • 2
    Fast search using a standard SQL on Oracle or PostgreSQL database. The package includes the database creator, loader and web application. It supports SMILES and SMARTS substructure searches, similarity search, stereochemistry.
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  • 3
    Small set of utilities used by the 2010 iGEM Mexico-UNAM-CINVESTAV Team to automate biobricks from files
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  • 4
    Suite of software tools for transcription factor binding site search, gene annotation, and orthology filtering. Some tools in the CisOrtho package are required along with MAQ for use in MAQGene.
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  • 5
    DIVAT (Diagnostic Immunohistochemistry Visualization and Analysis Tool) is designed to graphically analyse comprehensive data sets of immunohistochemical results as those used in clinical diagnostic pathology.
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  • 6
    MTMP is a multi-threaded multiple pattern matching algorithm based on the Wu-Manber algorithm.
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  • 7
    A C++ Library for modelling and analyzing biochemical networks
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  • 8
    TGI Clustering Tool
    A software solution for clustering large EST/mRNAs datasets.
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  • 9
    Text2Genome is a set of scripts to extract nucleotide sequences from scientific articles and to map them to genomes and genes using a local alignment algorithm (BLAST/BLAT)
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    Desktop and Mobile Device Management Software

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  • 10

    ChiBE

    Chisio BioPAX Editor

    ChiBE (Chisio BioPAX Editor) is an open source pathway editor for biological pathways in BioPAX format. 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
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  • 11
    BigRedBin is a web-based tool designed to pre-process metabolomics data generated by a mass spectrometer in an attempt to increase the signal-to-noise ratio. This is accomplished by using information from multiple technical replicates.
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  • 12
    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
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  • 13
    Visualize chromatographic properties for peptides from replicate, multi-site HPLC-MRM Mass Spectrometry experiments. RT Viewer was developed to easily visualize and troubleshoot chromatographic properties of a study across multiple laboratories.
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  • 14
    The DNA Sequence Read Toolkit is a set of programs to convert data from DNA sequencing instruments into formats suitable for archiving, viewing or for onward processing (for example alignment or assembly).
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  • 15
    FunctSNP is an R interface to an SQL database for linking single nucleotide polymorphisms (SNPs) to functional knowledge. FunctSNP should work on any OS on which R runs.
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  • 16
    Free software tools released by the Virtual Institute for Microbial Stress and Survival, including WIST (a toolkit for LIMS development) and PCAPStore (a file repository for LIMS).
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  • 17
    Algorithm Based Automatic Contiguation of Assembled sequences (ABACAS) is an integrated platform for quickly contiguating reference based assemblies.
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  • 18
    simple-galib
    This library is a lightweight implementation of genetic algorithm, contains the most popular types of chromosomes and the basic algorithms for selection, elitism, crossing and mutation.
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  • 19
    FusionMiner
    FusionMiner is a molecular biology program which accepts genomic alignments in BLAST/BLAT tabular output and attempts to find true fusion transcripts. A single command runs the pipeline and generates results.
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  • 20
    HOPPscore is a simple application for evaluating the structural quality of theoretical or experimental protein structures. Protein are evaluated by comparing structure fragments to a reference dictionary of fragments from high resolution structures.
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  • 21
    CentroidFold for predicting RNA secondary structures
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  • 22
    C++ Library for manipulating biomolecular sequence data.
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  • 23
    FAS-DPD
    FAS-DPD is a program to design degenerate primers for PCR.
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  • 24
    Simple static viewer of abnormal read pairs in second-generation alignment data.
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  • 25
    Metmask has moved to github http://github.com/hredestig/metmask Metmask is a tool written in python for managing chemical identifiers for metabolomics experiments. It can incorporate identifiers from local textfiles, several online databases, query PubChem and record all found associations in a local sqlite database.
    Downloads: 1 This Week
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