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The Bioperl Project is an international association of developers of open source Perl tools for bioinformatics, genomics and life science research. The Bioperl server provides an online resource for modules, scripts, and web links.www.bioperl.org
The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.
biojava.org
The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology.
biopython.org
A hierarchical database system for displaying genomic data (originally C. elegans), suitable also for displaying other scientific data.
www.acedb.org
Bielefeld University Bioinformatics Server
BiBiServ supports Internet-based collaborative research, software development and distance education in bioinformatics.
bibiserv.techfak.uni-bielefeld.de
OO Interface to AceDB
stein.cshl.org
The Bioconductor project produces an open source software framework that will assist biologists and statisticians working in bioinformatics, with primary emphasis on inference using DNA microarrays, built mostly using R.
www.bioconductor.org
Tools that searches multiple biomedical databases from your desktop.
www.bioquery.org
Biochemical Algorithms Library
C++ framework for rapid software prototyping in molecular modeling.
www.bioinf.uni-sb.de
High Throughput Screening Tools
Analytical tools and SQL scripts that solve common problems in drug discovery.
www.htstools.com
PAL library is a Java toolkit for determining evolutionary trends.
www.cebl.auckland.ac.nz
Software development for structural bioinformatics. Runs on Unix, Windows and MacOSX.
www.moltalk.org
An open source project to develop PHP code and scripts for biocomputing. A wiki-like service allows collaboration between developers.
www.biophp.org
BioRuby project aims to implement an integrated environment for Bioinformatics with Ruby language.
bioruby.org
An open source library of Java bioinformatics algorithms. The current version consists mainly of sequence alignment algorithms such as Needleman- Wunsch and Smith-Waterman.
neobio.sourceforge.net