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Documentation Workspace

Welcome! The Documentation Team uses this Workspace to track and manage documentation projects and products in various stages of development. It is not intended to be the final resting place for documentation, but rather a place to work on projects until they reach a level of readiness appropriate for use.

Documentation Product Status: status of each documentation product/resource

Note: to keep this clean and useful, completed projects and projects that will not receive further updates are in a separate chart below.

Under Discussion

In Planning

Taking Off

In Flight

Recently Landed or Ongoing



Written tutorials for specific scientific workflows using the DE

iPlant Screencasting (Jason/Shannon)
See also: Specific screencast videos currently being produced




iPlant Infographic (Shann)


Atmosphere User Manual




Open(1) for all TR ontology 

For status of work in progress for the next DE release, see DE Documentation Status
For current release of the manual, see Discovery Environment Manual




BisQue (Shann)





Training Module Materials (Shann)

Open(1) for all unreleased DE components 




Genome Assembly (Shann)

Wiki Knowledge Management (Shann, Tina, MMS)




iPlant Newsfeed (Shann)

TNRS documentation (Shannon)




My-Plant (Shann)

List of Available Materials, Documentation, and User Help Options  




TreeViz (Shann)

Social Media campaign (Shannon)




E-Training Initiative (Shann)

Evaluation Guide (Quick Start) for Atmosphere 





_InclusionsLibrary (Kathleen) For reusable content





 User Help Forums (Shann)

1 Open refers to the full process of intellectual property disclosure to the UA Office of Technology Transfer and release documentation (README, INSTALL files, etc.) for code that is made available to the public.

Completed, older projects

What Goes Where

Getting Started with CyVerse Home

Data Store section for iPlant Website (Shann)

Registered iPlant Users Metrics (Shann)

Moving Apps documentation out of versioned DE Manual (Matthew) DONE: Discovery Environment Applications List

Moving DE tool integration into DE Manual 1.0 (Matthew)

Removing old DE tool integration documentation (Matthew)

TiTo (also exists for old, manual method) (Matthew, Shannon) Has been merged into DE manual for 1.0

Tool/application integration documentation update (Matthew, Shannon) done for 0.6--for 1.0, merged into DEman1p0

BrachyBio! documentation (Matthew, Mary Margaret)

Release notes for DE 0.6 (Matthew/Shannon)

DEman0p6 (Matthew, Shannon)

iPlant Website update for 0.6 release (Shannon)

User help forum (Matthew)

Release Notes for DE 0.4 (Shannon, Matthew)

iPlant Wiki Article (Matthew)

History of iPlant page for Wiki & Website

Refreshed Website (Vicki, SAs)

DEman0p4 (Matthew, Shannon)

Open(1) for datamatch (lopper) (Matthew)

Open(1) for Atmosphere for Android (Matthew)

Tools and Analyses Integration Using JSON (Shannon)

Open(1) for TNRS (Matthew)

Release Notes for DE 0.3 (Matthew)

DE Manual 0.3 (Matthew)

Open(1) for Atmosphere (Matthew)

Open(1) for tree reconciliation viewer (Matthew)

Open(1) for phyloviewer (Matthew)

Open(1) for viewer-editor framework (Matthew)

Open(1) for phyloparser (Matthew)

Open(1) for iplant-treerec (Matthew)

DE Manual 0.2 (Matthew)

docstand (Matthew)

Documentation Review Procedure Draft, not been able to implement (Matthew)

Open Source release process Checklist - Developer Notes(Matthew)

Documentation Plan (Matthew)

The Documentation Team + ad hoc includes:

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