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BioJava.org
38573
BioJava.org
http://biojava.org/
The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.
Biology > Bioinformatics > Software > Software Development
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Jan 6, 2008
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Other links at Biology > Bioinformatics > Software > Software Development
1. Sight
Extendable parallel system for automatic genome analysis. Software for analysing all potential genes in a defined genome region. Given two marker names, can output reports of genomic features between them. Features for converting between naming systems, sequence retrieval, E-PCR, gene prediction, similarity search, protein pattern search, and report formatting. Written in Java.
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2. BioPHP
An open source project to develop PHP code and scripts for biocomputing. A wiki-like service allows collaboration between developers.
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3. Dynamite
Code generator for writing dynamic programming programs.
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4. BioJava.org
The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.
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CLEML open format for representing and exchanging 13C metabolic flux analysis models.
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PAL library is a Java toolkit for determining evolutionary trends.
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7. BioQuery
Tools that searches multiple biomedical databases from your desktop.
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8. InterMine
InterMine is an general-purpose object-oriented data warehouse system developed as part of the FlyMine project and made available as stand-alone open-source software.
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Predict metabolic pathways from genomes and graphically depict pathways. Visualize gene expression data on a metabolic pathway map. Generate a metabolic wall chart. Includes a genome browser and support for transcriptional regulatory networks.
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10. The Scriptome
A set of software tools that filter, format, and merge data in tabular or common biological formats. Organized as a classified collection of Perl one-liners.
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