iCys User Guide

May 6, 2005 iCys Cytometric Analysis Software Application Overview
Pixel survey method—From the Field image (or if you are using tools from the
iNovator Toolkit, the Field or Well image windows) survey the pixel values at the
edge of a number of representative events about which you want the system to
draw contours. Set the threshold value to a rough average of these values.
Image window method—The image window allows you to interactively view the
effects of changing the threshold setting. With the threshold module selected,
bring up, the image window by Clicking on the View Image icon ( ) in the
Protocol Tool Box window.
This will open up the Interactive Threshold window as shown below.
The Interactive threshold window will display a binary image of the scan field
where pixel values above the threshold are bright and pixel values below the
threshold are dark. In the above example, the threshold value is 5000.
Use the slide bar in Threshold module to decrease the threshold value until
dimmer nuclei can be seen in the Interactive Threshold window. The example
below is at a threshold value of 2500.
Revision B iCys Research Imaging Cytometer User Guide 3-53