iCys User Guide

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iCys Cytometric Analysis Software Application Overview iCys Task Bar 4. To change the expression level for a run statistic, click the Toggle shading mode ( ) icon. The eight-level color scale will be replaced by a three level scale, as shown below. 5. Note: You can set the minimum (Min) and maximum (Max) boundaries for the expression display for each run statistic in the Run Statistics menu. If used, these boundaries are reflected in the temperature-style scale. 6. After the expression display is set up, you can: ✧ Switch between to the two expression level displays using the Toggle shading mode icon ✧ Select a different run statistic from the run statistic drop down 7. To turn off the expression display, select None from the run statistic dropdown and click Show legend again. Setting up a Freeform Carrier Scan The Scan Area dialog box for freeform carriers, described in “Loading Specimen Carriers” on page 3-16, is analogous to the Scan Area dialog box for plates. It allows you to set the scan areas and other parameters for all non-plate carriers. The Scan Area Setup window allows you to: ❑ Define the location and size of scan areas ❑ Select scan areas for scanning, data display or data storage (the “active” scan area) 3-22 iCys Research Imaging Cytometer User Guide Revision B
May 6, 2005 iCys Cytometric Analysis Software Application Overview Note: If your system does not have the optional AutoFocus feature, do not select scan areas in multiple petri dishes. When scanning a petri dish carrier without AutoFocus, you must move the objective turret to the full downward position when moving between petri dishes (or the objective may hit the side of a petri dish). The Scan Area Setup window for freeform (that is, non-microplate) carriers displays a picture of the carrier. For example, if the carrier is a standard, single slide, a window similar to the following displays when you click the Carrier button: Note: To make changes to the Scan Area Setup window, you will need to click the Lock icon to unlock the editing area. For a 4 slide carrier, petri dish, or other freeform carrier, a window that shows the outline of the selected carrier displays when you click the Carrier button from the task bar. For example, the Scan Area Setup window for a 3 petri dish holder appears below. Revision B iCys Research Imaging Cytometer User Guide 3-23
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User Guide DOC190-0037-001 Revision
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Contents Chapter 1 Introduction Man
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Chapter 1 Introduction This manual
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iCys User Guide

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