The XY Plot can be used to display the effect of two categorical variables, like time and treatment or dose and treatment, on a response variable/ Bar chart visualizes the intensity of one probe(set)/gene across two categorical variables. Only one probe(set)/gene may be visualized at a time.

Invoking from a gene list

We will invoke an XY Plot from a gene list child spreadsheet with genes on rows. The parent spreadsheet should include the categorical variables you want to chart. 

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Lines, but not points, can be selected when using Selection Mode (). 

Invoking from the parent spreadsheet

It is also possible to invoke an XY plot from the parent spreadsheet using the main toolbar.

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To switch this plot from to one of the gene lists we have created, we can use the drop-down menu next to the previous/next controls. 

Bar Chart Plots

The XY Plot can instead be displayed as a bar chart with overlayed bars, vertically stacked bars, or horizontally stacked bars. A bar chart can be directly invoked or an XY Plot can be converted into a bar chart (and vice versa). 

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