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Difference between revisions of "Projects"
From Open Bioinformatics Foundation
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| − | + | ==Main projects== | |
| + | * [http://www.biojava.org BioJava] | ||
| + | * [[bp:BioPerl|BioPerl]] | ||
| + | * [http://biopipe.org BioPipe] | ||
| + | * [http://www.biopython.org BioPython] | ||
| + | * [http://www.bioruby.org BioRuby] | ||
| + | * [http://www.biodas.org DAS] and their list of [http://biodas.org/wiki/GlobalSeqIDs Global Sequence Identifiers] | ||
| + | * [http://www.biomoby.org MOBY] | ||
| + | * [http://www.emboss.org EMBOSS] | ||
| + | * [http://obda.open-bio.org OBDA] (this website is out of date, a new one is being developed) | ||
| − | http://www. | + | ==Affiliated projects== |
| + | * [http://www.gmod.org/ggb Generic Genome Browser] - part of [http://www.gmod.org GMOD] | ||
| + | * [http://www.gmod.org/schema/ Chado] - The GMOD DB schema | ||
| + | * [http://www.pasteur.fr/recherche/unites/sis/Pise/ Pise] - a tool to generate Web interfaces software for submitting jobs to these interfaces | ||
| + | * [http://industry.ebi.ac.uk/openBQS/ openBQS] - Bibliographic query system | ||
| + | * [http://blipkit.org BlipKit] - Chris Mungall's Prolog toolkit for Bioinformatics and BioMedical Informatics | ||
| + | * [http://skam.sourceforge.net/ BioMake & Skam] - Task management tool, similar to makefiles | ||
| − | + | ==Other related projects== | |
| + | * [http://biophp.org BioPHP] | ||
| + | * [http://www.yandell-lab.org/cgl/ CGL] - Comparative Genomics Library | ||
| + | * [http://wikiomics.org Wikiomics] - Bioinformatics wiki | ||
| − | + | ==Ontologies and Definitions== | |
| − | + | * [http://nemo-cyclone.sourceforge.net Cyclone] - provides an open source Java API to the pathway tool BioCyc. | |
| − | + | * [http://search.cpan.org/~cmungall/go-perl GO-Perl] - parsers and object model for OBO ontologies | |
| − | + | * [http://www.fruitfly.org/chaos-xml/ Chaos-XML] - File format based on the sequence modules of the Chado relational schema | |
| − | + | * [http://song.sourceforge.net/ Sequence Ontology] | |
| − | + | * [http://geneontology.org/ Gene Ontology] | |
| − | + | * [http://www.fruitfly.org/~cjm/obol/ Obol] | |
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Revision as of 14:26, 11 May 2007
Contents
Main projects
- BioJava
- BioPerl
- BioPipe
- BioPython
- BioRuby
- DAS and their list of Global Sequence Identifiers
- MOBY
- EMBOSS
- OBDA (this website is out of date, a new one is being developed)
Affiliated projects
- Generic Genome Browser - part of GMOD
- Chado - The GMOD DB schema
- Pise - a tool to generate Web interfaces software for submitting jobs to these interfaces
- openBQS - Bibliographic query system
- BlipKit - Chris Mungall's Prolog toolkit for Bioinformatics and BioMedical Informatics
- BioMake & Skam - Task management tool, similar to makefiles
Ontologies and Definitions
- Cyclone - provides an open source Java API to the pathway tool BioCyc.
- GO-Perl - parsers and object model for OBO ontologies
- Chaos-XML - File format based on the sequence modules of the Chado relational schema
- Sequence Ontology
- Gene Ontology
- Obol
