Volcano Plot of Microarray Data Options

Title

The main title at the top of the graph.

X axis Title

The title on the X axis of the graph.

Y axis Title

The title on the Y axis of the graph.

Symbol

The symbols to be used for plotting the points in the graph.

Display Key in plot

Display a key indicating the slides for a superimposed graph, or the Groups within Plots factor levels.

Shading Colours

These two colours are used for the points within the Volcano plot. The colour of any point will be a linear blend of the two colours. You select the extreme colours to be used and all other colours will be made as a mixture of these two. For example, with the default low set as blue and the high set as red, intermediate colours will be in purple. The number of shading steps is set by Number of shading steps option.

Number of shading steps

The number of groups to shade. The data are divided into the specified number of equal sized groups using the percentiles of the Shade by variate from the main menu. The colours are then assigned to the groups using a interpolation between the two colours specified below.

From (Low values)	A drop down list of colours. Select the colour to be used to identify the lowest group in the plot.
To (High values)	A drop down list of colours. Select the colour to be used to identify the highest group in the plot.

Action Buttons

OK	Save the option settings and close the dialog.
Cancel	Close the dialog without making any changes.
Defaults	Reset the options to their default settings.