Chado Doc Project

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One remaining significant task in this effort to organized GMOD’s documentation is to further document Chado. You’ve noticed that there is some good documentation on Chado in the Wiki now, this is material that has been drawn from a number of different files, re-organized, and edited. Much of this material is theoretical and introductory. We shouldn't minimize it’s importance, in fact it’s essential. What we need now is material that is very practical and specific.

There are 2 basic tasks:

  • Document all the Best Practices. Sometimes this means writing up a description of a Best Practice, sometimes this means reviewing what's been written.
  • Review all the dedicated module pages. Sometimes this also means providing introductory material and an example of how the module is used in practice.

There are about 25 Best Practices topics currently and 17 module pages. This topics and pages have been divided into 8 work packages, whenever possible related topics and pages have been gathered into one work package.

Why This is Important

A bit of cheerleading: In another job I recently did a little project where I studied a number of open source schemas that handle sequence data and data related to sequence (e.g. Atlas, Biowarehouse, aMaze, Chado, GUS). There is no doubt that Chado stands head & shoulders above its comrades in terms of its expressiveness, logic and coherence, and extensibility. It is truly a work of conceptual art. It is also not the easiest schema to use, compared to its comrades. Let us complete this work that needs to be done on Chado so that the largest number of people can benefit from it. Bosborne 11:24, 8 May 2007 (EDT)

Work Packages

Please choose one and enter your name.

Package 1


Package 2

Contributor: Sohel Merchant

Package 3


Package 4

Contributor:pinglei zhou

  • Genetic - needs introduction and examples
  • Phenotype - needs introduction and examples

Package 5


  • Library - needs review
  • Map - needs introduction and examples

Package 6


  • Organism - needs introduction and examples
  • Phylogeny - needs more introduction and examples

Package 7

Contributor: Eric Just

Package 8


  • Stock - needs introduction and examples
  • WWW - needs introduction and examples