TreeBase Information

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Revision as of 10:32, 15 November 2007 by Arlin.stoltzfus@nist.gov (talk)
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TreeBase is a database developed with the stated purposes of archiving published data sets and supporting meta-analyses. Currently there is an effort to re-engineer the schema in the form of a TreeBase II. Arlin has schema documents (UML, XMI) from the developers that he can share with you.

  1. The specification language is SQL
  2. The scope covers character data, trees, and some analysis information; essentially it is a large subset of what is covered in a NEXUS file
  3. Within this scope, the schema has similar limitations to NEXUS (poor support for specifying models and complex data sets)
  4. Development is controlled by the administrators
  5. We are not aware of a versioning policy.
  6. We are not aware of a conformance policy. The administrators are loose about the NEXUS format for uploading data to TreeBase. In the past they have corrected invalid files received from users.
  7. TreeBase is actively used and we expect that the TreeBase II update will take place eventually
  8. TreeBase is widely used for archiving in some areas of the systematics community. It has not been widely used for meta-analyses, to our knowledge. Currently the interface is very limited.