Argo Analyze Menu
This page describes each menu item in the Argo Analyze menu.
| Menu Item | Shortcut | Active If... | Description |
|---|---|---|---|
| Align | feature(s) selected | Brings up a window that lets you run a simple alignment on the selected features. | |
| Show Matching Intronic Edges for Selected Feature(s)* | feature(s) selected | Highlight matching intronic edges in rest of map for selected feature(s). | |
| Hide Matching Intronic Edges* | feature map active | Hide any intronic edge highlights. | |
| PolyA Signal View* | feature(s) selected | Show polyA signal view for selection(s). | |
| Splice Site Profile* | feature(s) selected | Show splice site profile for selection(s). | |
| Codon Usage | feature(s) selected | For each selected feature, show the ORF size and percentage of codons beginning with A, C, T, and G. | |
| View Multiple Alignment | alignment span feature(s) selected | Internal calhoun database only. Shows a marked up nucleotide level multiple alignment. | |
| Jython Scripting Window | always | Brings up an embedded Jython Interpreter for interactive scripting. | |
| Run QA Feature Analysis | feature(s) selected | Runs a battery of tests to see if selected features look like potentially valid transcipts. |
* Available on right click in the Feature Map window.