Analysis Framework

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Analysis Components Menu

Most analysis actions are activated in one of two ways.

  1. Right-click on a data node
  2. In the top Menu Bar, select Commands->Analysis

Either method will bring up a list of the currently loaded analysis components. Additional components may be available in the Component Configuration Manager.

Workspace Analysis ANOVA v25.png

Selecting a component will cause its analysis control dialog to appear. The components share a common framework, but each also has its own controls and parameters. The below figure shows the ANOVA analysis dialog.

ANOVA Parameters 25.png

Analysis Actions

At right are three buttons shared by all analysis components:


Launches the currently selected analysis with the specified parameters.

Save Settings

Save the current parameter settings to a named set in the settings list.

Delete Settings

Delete the currently highlighted settings entry from the list.

Creating saved parameter sets

The current parameter settings can be saved by pushing the Save Settings button. A dialog will appear asking for a name for the new set of saved parameters.

Analysis Parameters Save.png

In this figure, the default settings have been saved to a set called "Initial Settings".

Analysis Saved Parameter Set.png

If any parameters are then changed, the entry "Initial Settings" will no longer be selected in the list. However, if it is chosen again, its saved parameter settings will be restored.

Interplay of parameters and list

  • The analysis parameters can be restored to their saved values by selecting the desired item on the list.
  • When the parameters shown in the graphical interface match those stored in a saved parameter list entry, that entry will be selected (highlighted). If any change is made so that the parameters no longer match a stored entry, then no entry will be highlighted, except that
  • text fields will only be checked if
    • the user hits "Enter" in the changed text field or another text field in that component, or
    • the user clicks on a control such as a radio button that changes another parameter in the component.

Freestanding Analysis Components

Some complex analysis functions, such as Promoter Analysis, are not started from the Analysis menu. Instead, if they have been loaded in the CCM, they are found directly in the Visual Area at upper right in geWorkbench (when an appropriate data node is selected, e.g. a sequence file for Promoter Analysis).

Previous Versions

Please see Prevous Analysis Layouts for versions of geWorkbench prior to 2.5.0.