Difference between revisions of "Guide/Matrix"

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[[Image:Matrix.jpg]]
 
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1. Number of OTUs and Character in the matrix.
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1. Number of OTUs and Characters in the matrix.
  
 
2. Click on a matrix cell and the OTU, Character and State information will display above the matrix.
 
2. Click on a matrix cell and the OTU, Character and State information will display above the matrix.

Latest revision as of 14:59, 31 August 2009

  Mx matrices are best viewed using Firefox.  Get Firefox here.

[edit] Introduction

[Matrices] in mx display the intersection of a series of characters and OTUs set to public by the matrix owner.

[edit] Overview of functionality

Shows the matirx, one click view for matrix cells, nexus and tnt file export, link to views for tags, characters and OTUs.

[edit] Definitions

  • OTUs (Operational Taxonomic Units) are the taxa being compared.

[edit] Navigating the page

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1. Number of OTUs and Characters in the matrix.

2. Click on a matrix cell and the OTU, Character and State information will display above the matrix.

3. Links to other display pages including:

  • characters - a list of characters in the key which link to detailed descriptions of character/character states. Includes images and figures.
  • grid tags - Mx [tags] are combination of a user defined keyword and an "object" (anything with a primary_id, such as an OTU, character, character state, coding, image, collecting event, specimen etc.) in mx. Within a tag an optional linkage to a reference and a custom notes/value field are also available. Tags are great way to group objects within mx, or communicate notes etc.
  • trees - Link to [trees] associated with this public matrix. Mx can store phylogenetic trees. Both Newick formatted strings (a simple text field) and a fully parsed set of nodes are stored in the database. While there is currently minimal functionality for using the parent/child data the system provides a good starting point for those wishing to develop query based methods on trees.

4. Matrices are exported in nexus and tnt formats.

  • save as file - downloads directly to your computer. The other print to the screen. Cut and paste the text and save as a file.

5. Change the size of a matrix display to accommodate any size screen. This functionality is particularly important with larger matrices.

6. Links to the home page and help topics for a page.

7. Click on an OTU in a matrix takes you to a OTU show page.

8. Click on a character takes you to a character show page.

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