About Wasabi

 

 

Mol. Biol. Evol. article describing Wasabi: web article and pdf.

 


 


 

A quick start guide

Wasabi can be learned by exploration and hovering the mouse over the interface elements displays useful information.

To start, open Wasabi and:

Data import

From the Data menu you’ll find several options for importing data.

  • Library gives you access to your personal analyses repository in the Wasabi server. Click Open in the Library window to load up the example dataset. Tip: to erase a dataset from library, click More info => Delete.
  • You can also drag files directly from a folder to the file drag area in Import window. Wasabi expects 1-2 files containing multiple DNA/protein sequences and/or a phylogenetic tree.
  • If you have a particular gene in mind, type it’s name, Ensembl GeneID or GeneTreeID in to the designated field in Import window and click import. An example ID is already filled in.

datamenu import

Explore and edit

  • Use arrow keys, mouse scrollwheel or drag the ruler to move around the sequence alignment.
  • Drag the button above the phylogenetic tree or the divider between the tree and the sequence area to rearrange work space. Click on the lower-left edge of the top toolbar to hide it.
  • Clicking on any tree node or leaf opens up a pop-up menu for different options for that subtree. You can drag/drop tree nodes to rearrange or prune branches.
  • In the sequence area, you can click for an info dialog, drag to make selections or right-click inside/outside of a selection for an appropriate pop-up menu.
  • Most of edits can be undone/redone using the toolbar buttons. Click the button between undo/redo to see edits history and to pick a custom edit point to revert.
  • You can realign currently open data from Tools menu => Align. After clicking on Start alignment, the sequence data will be sent to Wasabi server to be aligned with the PRANK aligner. A notification button on the toolbar will show the alignment status. Click on it to see the progress and to import results.

toolsmenu tree_popup

seq_popup

Save and export

  • Data menu => Save gives you an option to save a snapshot of the data to your analysis library in Wasabi server. Click on the name field in the Save window, Library window or on top of the menu toolbar to edit and update it in the server.
  • Data menu => Export allows you to save the data as a text file in a chosen file format to a local disk.