Newport iServer MicroServer iTHX-M, Operator'S Manual

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102
Affymetrix GeneChip
®
Genotyping Analysis Software User’s Guide
• Analysis Defaults, on page 135
• Starting GTYPE, on page 50
CHANGING THE INTENSITY RANGE
You can enter a new lower or upper limit for the intensity range
associated with a cell intensity image and apply this subset of the
dynamic range to the image. Lowering the upper limit increases the
image brightness and raising the lower limit decreases the brightness.
Using this image scaling process, you can adjust the display of a cell
intensity file for optimum viewing. Alternatively, GTYPE can
automatically scale the image using the minimum and maximum
pixel intensities of the image.
• To automatically scale an image, choose the Autoscale option in
the Defaults dialog box (Figure 3.15) and click OK .
• In the Image Settings dialog box for the current cell intensity
data file, you can click Defaults to return the intensity
parameters (Autoscale option and Intensity range) to the settings
in the Image Settings tab of the
Defaults dialog box. (For more
information about the Image Settings dialog box, see Making
Adjustments to the Current Image Only, on page 84 ).
CHANGING THE COLOR DISPLAY
You can view the pixel intensity values in gray scale or pseudo color
(generated by applying rainbow colors to the intensity scale). Choose
the
Color Bar option (Figure 3.15) to display a gray scale or pseudo
color bar at the top of the Image window.
The image settings specified in the Defaults dialog box (except for
the color option) are applied to subsequently opened cell intensity
data and do not affect an active, open file.
GTYPE_manual.book Page 102 Wednesday, August 2, 2006 11:31 AM