Difference between revisions of "Specification"

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==Level3==
 
==Level3==
 
* Supports metabolic pathways, signaling pathways (including states of molecules and generic molecules), gene regulatory networks, molecular interactions, genetic interactions. Not backwards compatible with Level 2.
 
* Supports metabolic pathways, signaling pathways (including states of molecules and generic molecules), gene regulatory networks, molecular interactions, genetic interactions. Not backwards compatible with Level 2.
* [http://biopax.org/release/biopax-level3.owl Official BioPAX Level 3 OWL file] - Status: <del>Draft, but ready to use.</del> '''Warn: it's not ready to use because - still has 'taxonXref'!''' Should be finalized by June.2010
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* [http://biopax.org/release/biopax-level3.owl Official BioPAX Level 3 OWL file] - Status: Draft. Should be finalized by June.2010
 
* [http://biopax.org/release/biopax-level3-documentation.pdf Official BioPAX Level 3 Documentation] - Status: Draft. Should be finalized by June.2010
 
* [http://biopax.org/release/biopax-level3-documentation.pdf Official BioPAX Level 3 Documentation] - Status: Draft. Should be finalized by June.2010
 
* BioPAX Level 3 Data Sources - Coming soon
 
* BioPAX Level 3 Data Sources - Coming soon
 
* Developer resources
 
* Developer resources
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release3/ Mercurial home] - all versions from the Mercurial version management system on Sourceforge
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** [http://biopax.hg.sourceforge.net/hgweb/biopax BioPAX Mercurial home] - browse the Mercurial versioning system repository from the root
 
** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/raw-file/default/Level3/specification/biopax-level3.owl BioPAX Level 3 OWL] - Current OWL
 
** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/raw-file/default/Level3/specification/biopax-level3.owl BioPAX Level 3 OWL] - Current OWL
** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/file/default/Level3/specification BioPAX Level 3 OWL] - Revision history
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** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/log/default/Level3/specification/biopax-level3.owl BioPAX Level 3 OWL] - Revision history
 
** [http://www.mygrid.org.uk/OWL/Presentation?url=http://www.biopax.org/release/biopax-level3.owl Auto-generated ontology documentation]
 
** [http://www.mygrid.org.uk/OWL/Presentation?url=http://www.biopax.org/release/biopax-level3.owl Auto-generated ontology documentation]
 
** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/file/default/Level3/docs Documentation]
 
** [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/file/default/Level3/docs Documentation]
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* [http://sourceforge.net/apps/mediawiki/biopax/index.php?title=BioPAX_Level_2_Data BioPAX Level 2 Data Sources]
 
* [http://sourceforge.net/apps/mediawiki/biopax/index.php?title=BioPAX_Level_2_Data BioPAX Level 2 Data Sources]
 
* Developer resources
 
* Developer resources
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/ CVS home] - all versions from the previously used CVS version management system on Sourceforge
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** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/ BioPAX CVS home] - all versions from the previously used CVS version management system.
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/ BioPAX Examples]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/ BioPAX Examples]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/biopax-level2-documentation.pdf?view=log Documentation]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release2/biopax-level2-documentation.pdf?view=log Documentation]
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* [http://sourceforge.net/apps/mediawiki/biopax/index.php?title=BioPAX_Level_1_Data BioPAX Level 1 Data Sources]
 
* [http://sourceforge.net/apps/mediawiki/biopax/index.php?title=BioPAX_Level_1_Data BioPAX Level 1 Data Sources]
 
* Developer resources
 
* Developer resources
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/ CVS home] - all versions from the previously used CVS version management system on Sourceforge
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** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/ BioPAX CVS home] - all versions from the previously used CVS version management system.
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/ BioPAX Examples]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/ BioPAX Examples]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/biopax-level1-documentation.pdf?view=log Documentation]
 
** [http://biopax.cvs.sourceforge.net/viewvc/biopax/biopax/release1/biopax-level1-documentation.pdf?view=log Documentation]
 
** [http://www.mygrid.org.uk/OWL/Presentation?url=http://www.biopax.org/release/biopax-level1.owl Auto-generated ontology documentation]
 
** [http://www.mygrid.org.uk/OWL/Presentation?url=http://www.biopax.org/release/biopax-level1.owl Auto-generated ontology documentation]
  
=== Logs ===
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== Other ==
* You can use these to follow the latest BioPAX development progress
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===Follow the BioPAX development logs===
 
* [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/atom-log Changelog (Atom)]
 
* [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/atom-log Changelog (Atom)]
 
* [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/rss-log Changelog (RSS)]
 
* [http://biopax.hg.sourceforge.net/hgweb/biopax/biopax/rss-log Changelog (RSS)]
  
 
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Revision as of 16:36, 27 May 2010

Specification

This pages provides links to the BioPAX specifications and associated documentation. The latest version is BioPAX Level 3 and it is recommended that users adopt or migrate to this version.

Level3

Level2

Level1

Other

Follow the BioPAX development logs