Most of the time DAPI is only used to see the structure of the tissue and to make sure that the coexpression is actually on a cell. In addition, merging the DAPI image with the rest of the images often result in the coexpression being white instead of yellow.
Cytosketch provides a function that layers the DAPI image underneath the merged images and at the same time changes the DAPI channel color from blue to grey. This allows you to still see the structure of the tissue but without the DAPI interfering in the coexpression.
Below is a short movie that shows how to layer the DAPI image.
To change the color of the channel click the Color button in the Adjust Image Control box and choose a new color from the drop down list.