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Software Development (32)
See Also:
Editor's Picks:
» Bioperl.org 
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.
http://www.bioperl.org/
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.
http://www.bioperl.org/
Sites:
» AceDB
A hierarchical database system for displaying genomic data (originally C. elegans), suitable also for displaying other scientific data.
http://www.acedb.org/
A hierarchical database system for displaying genomic data (originally C. elegans), suitable also for displaying other scientific data.
http://www.acedb.org/
» Bielefeld University Bioinformatics Server
BiBiServ supports Internet-based collaborative research, software development and distance education in bioinformatics.
http://bibiserv.techfak.uni-bielefeld.de/
BiBiServ supports Internet-based collaborative research, software development and distance education in bioinformatics.
http://bibiserv.techfak.uni-bielefeld.de/
» BioJava.org
The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.
http://biojava.org/
The BioJava Project is an open-source project dedicated to providing Java tools for processing biological data.
http://biojava.org/
» BioLisp.org
BioLisp.org is a public resource supporting scientists who use Lisp to develop intelligent applications in the biological sciences. We collect and disseminate Lisp biocomputing code, and gather pointers to Lisp and other Intelligent BioComputing methods.
http://nostoc.stanford.edu/Docs/
BioLisp.org is a public resource supporting scientists who use Lisp to develop intelligent applications in the biological sciences. We collect and disseminate Lisp biocomputing code, and gather pointers to Lisp and other Intelligent BioComputing methods.
http://nostoc.stanford.edu/Docs/
» BioPHP
An open source project to develop PHP code and scripts for biocomputing. A wiki-like service allows collaboration between developers.
http://www.biophp.org
An open source project to develop PHP code and scripts for biocomputing. A wiki-like service allows collaboration between developers.
http://www.biophp.org
» BioPython
The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology.
http://www.biopython.org/
The Biopython Project is an international association of developers of freely available Python tools for computational molecular biology.
http://www.biopython.org/
» BioQuery
Tools that searches multiple biomedical databases from your desktop.
http://www.bioquery.org/
Tools that searches multiple biomedical databases from your desktop.
http://www.bioquery.org/
» BioRuby
BioRuby project aims to implement an integrated environment for Bioinformatics with Ruby language.
http://bioruby.org/
BioRuby project aims to implement an integrated environment for Bioinformatics with Ruby language.
http://bioruby.org/
» BioWarehouse Database Integration System
Integrates multiple public bioinformatics databases into a single relational database system within a common bioinformatics schema.
http://biowarehouse.ai.sri.com/
Integrates multiple public bioinformatics databases into a single relational database system within a common bioinformatics schema.
http://biowarehouse.ai.sri.com/
» Biochemical Algorithms Library
C++ framework for rapid software prototyping in molecular modeling.
http://www.bioinf.uni-sb.de/OK/BALL/
C++ framework for rapid software prototyping in molecular modeling.
http://www.bioinf.uni-sb.de/OK/BALL/
» Bionconductor
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.
http://www.bioconductor.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.
http://www.bioconductor.org/
» Brainwave Biosolutions
Bioinformatics Company focused on the development of data mining products, databases, visualization and analysis tools.
http://www.brainwave.in/
Bioinformatics Company focused on the development of data mining products, databases, visualization and analysis tools.
http://www.brainwave.in/
» Cell Electrophysiology Simulation Environment (CESE)
A framework to perform electrophysiological simulations. Useful for simulations of action potentials, individual ionic currents, and changes in ionic concentrations.
http://cese.sourceforge.net/
A framework to perform electrophysiological simulations. Useful for simulations of action potentials, individual ionic currents, and changes in ionic concentrations.
http://cese.sourceforge.net/
» DW Computing
Web design, computer sales, and custom programming, including bioinformatics.
http://www.DWcomputing.com
Web design, computer sales, and custom programming, including bioinformatics.
http://www.DWcomputing.com
» Daggoo
Daggoo helps biologists create automated analyses workflows using existing web services. Includes a video of the project.
http://www.daggoo.net
Daggoo helps biologists create automated analyses workflows using existing web services. Includes a video of the project.
http://www.daggoo.net
» High Throughput Screening Tools
Analytical tools and SQL scripts that solve common problems in drug discovery.
http://www.htstools.com/
Analytical tools and SQL scripts that solve common problems in drug discovery.
http://www.htstools.com/
» InterMine
A general-purpose object-oriented data warehouse system developed as part of the FlyMine project and made available as stand-alone open-source software.
http://www.intermine.org
A general-purpose object-oriented data warehouse system developed as part of the FlyMine project and made available as stand-alone open-source software.
http://www.intermine.org
» MolTalk
Software development for structural bioinformatics. Runs on Unix, Windows and MacOSX.
http://www.moltalk.org/
Software development for structural bioinformatics. Runs on Unix, Windows and MacOSX.
http://www.moltalk.org/
» NCICB Core Infrastructure
The National Cancer Institute's Center for Bioinformatics produces the caCORE infrastructure, an open-source enterprise architecture for cancer informatics.
http://ncicb.nci.nih.gov/NCICB/infrastructure
The National Cancer Institute's Center for Bioinformatics produces the caCORE infrastructure, an open-source enterprise architecture for cancer informatics.
http://ncicb.nci.nih.gov/NCICB/infrastructure
» NeoBio
An open source library of Java bioinformatics algorithms. The current version consists mainly of sequence alignment algorithms such as Needleman- Wunsch and Smith-Waterman.
http://neobio.sourceforge.net
An open source library of Java bioinformatics algorithms. The current version consists mainly of sequence alignment algorithms such as Needleman- Wunsch and Smith-Waterman.
http://neobio.sourceforge.net
» PISE
Given an abstract definition of a program's parameters, PISE can generate various types of interface from the configuration module.
http://www.pasteur.fr/recherche/unites/sis/Pise/
Given an abstract definition of a program's parameters, PISE can generate various types of interface from the configuration module.
http://www.pasteur.fr/recherche/unites/sis/Pise/
» Pathway Tools
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.
http://bioinformatics.ai.sri.com/ptools/
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.
http://bioinformatics.ai.sri.com/ptools/
» Phylogenetic Analysis Library
PAL library is a Java toolkit for determining evolutionary trends.
http://www.cebl.auckland.ac.nz/pal-project/
PAL library is a Java toolkit for determining evolutionary trends.
http://www.cebl.auckland.ac.nz/pal-project/
» 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, s
http://bioinformatics.org/jSight/
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, s
http://bioinformatics.org/jSight/
» The BioSharp Project
BioSharp is an open-source project to provide a framework for processing biological data using C# and other .net languages.
http://biosharp.sourceforge.net/
BioSharp is an open-source project to provide a framework for processing biological data using C# and other .net languages.
http://biosharp.sourceforge.net/
» The Darwin Manual
Guide to running this programming language. Library contains programs to compute pairwise alignments, phylogenetic trees, multiple sequence alignments, and to make secondary structure predictions.
http://www.inf.ethz.ch/personal/gonnet/DarwinManual/DarwinManual.html
Guide to running this programming language. Library contains programs to compute pairwise alignments, phylogenetic trees, multiple sequence alignments, and to make secondary structure predictions.
http://www.inf.ethz.ch/personal/gonnet/DarwinManual/DarwinManual.html
» 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.
http://sysbio.harvard.edu/csb/resources/computational/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.
http://sysbio.harvard.edu/csb/resources/computational/scriptome
» The Systems Biology Markup Language
Information on the SBML project which helps develop a variety of software packages for SBML, a computer-readable format for representing models of biochemical reaction networks in software.
http://sbml.org/
Information on the SBML project which helps develop a variety of software packages for SBML, a computer-readable format for representing models of biochemical reaction networks in software.
http://sbml.org/
» The XEMBL Project
XEMBL provides access to the EMBL/GenBank/DDBJ Nucleotide Sequence Database, providing output in various XML standards.
http://www.ebi.ac.uk/xembl/
XEMBL provides access to the EMBL/GenBank/DDBJ Nucleotide Sequence Database, providing output in various XML standards.
http://www.ebi.ac.uk/xembl/
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Last Updated: 2007-01-02 17:59:20
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