Child pages
  • T-Coffee

Versions Compared

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.
Comment: Migrated to Confluence 5.3

T-Coffee is a multiple sequence alignment package.

T-Coffee home page: T-Coffee

To make T-Coffee available from UGENE see the External Tools.

To use T-Coffee open a multiple sequence alignment file and select the Align with T-Coffee item in the context menu or in the Actions main menu. The following dialog appears:

HTML
<center>
     <br>
     <img src="/wiki/download/attachments/4228545/T-Coffee.png"/>
     <br>
</center>

The following parameters are available:

Gap opening penalty — indicates the penalty applied for opening a gap. The penalty must be negative.

Gap extension penalty — indicates the penalty applied for extending a gap.

Number of iterations — specifies the number of iterations.