iCys User Guide

Using the iNovator Toolkit iNovator-specific Protocol Modules
Whole section
dynamic scan area
Pictured below, on the same Tissue Micro-Array element, are the three types of
dynamically generated scan areas (outlined in yellow). The numbers shown are the
event IDs generated by the Show event name option.
Multi-Scale Association
Array Alignment
Rectangular dynamic scan area
—placed at centroid of element
Random dynamic scan area
—three scan areas specified
The Multi-Scale Association module is analogous to the Association module as
described on page 3-58 except that it operates across first and second scale scans
whereas the Association module operates within first or second scale scans (or single
scale scans.) This is illustrated in Tutorial Exercise 4 where the second scale event
component is associated with the first scale Tissue component. There are no
parameters for the Multi-Scale Association module.
The Array Alignment module is typically used when doing a low resolution scout scan
to identify the elements of a Tissue Micro-Array. The module identifies the contoured
events for the component to which it is attached, as an ordered pair of numbers. This
ordered pair represents the Column and Row for the element within the larger array.
This is pictured below.
B-26 iCys Research Imaging Cytometer User Guide Revision B