Overlays allow you to view two or more different populations in the same plot. Overlays can be applied to both dot plots and histograms.
Overlays can be created by selecting one or more populations from the side panel and then drag-and-dropping them onto the plot.
When overlays are applied, a few things happen. First, a legend appears in the upper-left corner of the plot. Additionally in the population tree, overlays are highlighted with their corresponding overlay color.
To be able to overlay a file, it must have all of the exact same parameters in the same order as the main file, not just the parameters that are displayed.
All overlays can be removed from a plot by right-clicking on the plot and selecting "Clear Overlays". If you would only like to remove a particular overlay, you can do that by right-clicking the population in the population tree and then selecting "Remove Overlay".
There are several options to change the way that overlays are displays. Options can be accessed by right-clicking on the plot. Display Options include:
You can edit the legend of the histogram by right clicking the plot and selecting "Edit Legend". This allows you to change the color and order of the entries in the legend. Note that the order of the items determines which histogram is displayed on top of the others. Also, note that you move top entry in the legend; it will always be the population you first dragged the overlays onto so choose which population to start with appropriately.
The legend can be toggled on or off by right-clicking the plot and selecting "Hide Legend" or "Show Legend."