iCys User Guide

May 6, 2005 Generating Analytical Data
Note: To be contoured, all the pixels within the area must be brighter than the
threshold level.
❑ Check Maximum Area—If this box is checked, the Max area field appears.
Events with a greater area than that specified in this field will not be contoured.
This feature is useful for microarrays where each core has a known size.
❑ Follow concave contour—Checking this box instructs the software to continue
tracking along concave segments of a contour.
❑ Color—Select the color for the contour using either the pulldown menu or the
color palette ( ).
❑ Fill—Check this box if you want the elements in the interior of the contour to be
colored.
Integration Contours
An Integration contour defines the area within which fluorescence will be integrated
for a given event. The integration contour is intended to capture more of the
fluorescence associated with an event by adding adjacent fluorescence just below the
threshold value.
An integration contour is specified in the Event module (Protocol ⇒ Event ⇒ Contour
tab):
Defining the Integration Contour
❑ Expand by—Adds a specified number of pixels between the threshold contour
and the integration contour. Keep in mind the following:
❍ If Added Pixels is set to 0, the Integration contour overwrites the Threshold
contour (that is, you only see the Integration contour line).
❍ If Added Pixels is set to 1, the integration contour is adjacent to the threshold
contour.
Revision B iCys Research Imaging Cytometer User Guide 4-7