Regatta/User Guide/GUI Tour

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Intro

A walk around the Regatta GUI This is intended to be a brief introduction to the GUI. We arbitrarily sever discussion of many functional aspects of the GUI here and save them for the Reference Guide. For more info links lead to the appropriate pages there.

The GUI is divided into six principal areas.

Menu Bar, with predicable features of file I/O and data analysis methods
Tool Bar, a redundant implementation of many Menu Bar features
Workspaces, a representation of list data by their list names. The active workspace is the principal list of lists. Passive workspaces are additional lists of lists.
Display Panel, where the list data can be visualized.
Methods Tabs, where the data transformation Methods live.
Data Table, where data can be visualized numerically.

Menu Bar

The menu bar functions in a familiar way.

For more info on the Menu Bar

File

Load reduced data files as either .trawl files or .csv files. Use the file browser attached to the menubar File->"Open trawl files" item or the T icon in the toolbar. One or several files may be loaded at once. Use the standard select features of the mouse and the file browser to load more than one file ProTrawler output (.trawl) files are binary and will load relatively fast.

Comma separated value (csv) files may be written and edited in Excel.

For more info on the Menu Bar File options

Edit

Copy displayed data to clipboard, (as a bitmap) to enable output to Word, PowerPoint, or other document editors.

Copy displayed data to as ascii text clipboard, enables output to Notepad,.emacs or other ASCII editors.

For more info on the Menu Bar Edit options

View

Workspaces, a toggle that hides/shows Workspaces
Plots, a toggle that hides/shows Plot frame that contains x-y and 2D Map plots.
Analytics, a toggle that hides/shows Analytics (Methods tabs)
Data Tables, a toggle that hides/shows the tabular data.

Plot controls are intended to be self explanatory. See Tool bar documentation for more information on these.

For more info on the Menu Bar View options

Help

About BioAnalyte Regatta includes version information and company contact information.

User Guide, links to this document with a web browser.

EULA, End User License Agreement contains the legal restrictions on the use of this application.

For more info on the Menu Bar Help options

For more info on the Menu Bar

Tool Bar

The Tool Bar reproduces much of the functionality of the Menu Bar.

For more info on the Tool Bar

Workspaces

Regatta lists are presented as Active (A) and Passive (B).

For more info on Workspaces

Active Workspace

Newly loaded lists are displayed in the active workspace. Each list is described by a label and a list type. Lists are assigned colors automatically; it is not possible to set colors in the current version of Regatta. List display may be turned on and off using the check box. When a list is selected, its label and type are highlighted. Selected lists are used for processing steps. N.B. List selection (highlighted labels) and display (check boxes) are unrelated.

Lists in the active workspace are available for processing by every method.

All methods require the list to be highlighted.

For more info on the Active Workspace

Mouse control on the active workspace

For more info on mouse control on the active workspace

Passive Workspaces

The Active Workspace is transformed into a Passive Workspace by pushing the New Workspace button. The lower frame (B) is passive. Display features are available, but no other methods.

For more info on Passive Workspaces

Mouse control on the passive workspace

These are simplified versions of the Active Workspace. Selection for processing is not possible, but display checkbox=ON/OFF is enabled. Lists may be deleted, saved or copied to the Active Workspace.

For more info on mouse control on the passive workspaces

Display Panel

There are two types of displays: stick plot and 2D map. A third type of display, the 1D pseudo gel view is available as a popup from the Workspace area.

For more info on the Display Panel

Stick plot

Flip plots. Select the Plot tab in the display panel. Set the display check box to ON in the Active Workspace. To flip the plot, select it in the Active Workspace and choose "flip list" from the right mouse popup menu.

For more info on Stick Plots

2D map

Select the Map tab in the display panel. Set the display checkbox to ON in the Active Workspace. The x-axis is retention time. The y-axis is mass. The blocks are drawn to represent the rectangle given by the vertices:

(low mass, start RT)
(low mass, end RT)
(high mass, end RT)
(high mass, start RT)

For more info on 2D Maps

1D Gel

Select list in Active Workspace. Right click and select "Display 1D pseudo- gel View.

For more info on 1D Gel Plots

For more info on the Display Panel

Methods Tabs

For more info on the Methods Tabs

Filter Tab

Lists my be filtered for

mass
retention time
absolute intensity
relative intensity.

Filtering is a compound process. The pop-up filter widget permits the creation of an arbitrary number of filters.

Filters on separate lines imply an logical AND relationship. The logical OR relationship may be used by selecting the OR option. Individual filters may be deleted by selecting the red X on the right. Press "Select" to engage the filter.

Filtering is accomplished by highlighting files in the active workspace.

Resulting lists are shorter than the original lists by the removal of elements that do not pass through the filter. Select one or several lists, the Filter button becomes active.