Using Color Schemes
Delta2D version 1.1 introduced freely definable color
schemes for gel comparison. That means you can now show spots on the master gel
in, say, blue and sample spots in orange. Delta2D allows you to specify four
colors: master spots, sample spots, common spots and background. Shades of these
colors are then used to encode different expression levels. A white background
is quite useful for printing dual channel images.
So-called analytical color
schemes produc specialized views on the analysis results, e.g. by showing
common spots only. Additionally, color schemes can be used to
compensate for the imbalance in color sensitivity of the human eye, thus
enhancing the visual comparison of spot intensities.
In Delta2D you can create you own color scheme or use one of the many predefined schemes.
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Here are two gel images:
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Monochrome image of gel A, which was loaded as master gel
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Monochrome image of gel B, which was loaded as sample gel
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Here you see how dual channel images from this pair of
gels look like using different color schemes:
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Color scheme "red-green-yellow"
introduced in Delta2D 1.0. master - green, sample - red, overlap - yellow,
background - black
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Color scheme "classic - same sensitivity"
is a modification of the classic scheme to assure equal appearance of master
and sample; readjustment may be necessary depending on monitor's color calibration.
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"winter" is another modification of the "classic" color scheme, replacing
yellow by white.
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A white background is often desirable for printing the dual channel image: master - green, sample - red, overlap - black,
background - white. Use color scheme "winter - inverted".
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There are more predefined color schemes, and it is easy to define your own:
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Color scheme "decodon - inverted" master - blue, sample - orange, overlap - white, background - night blue
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Color scheme "decodon" master - blue, sample - orange, overlap - black, background - white
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Color scheme "high contrast" master - green, sample - pink, overlap - white, background - black
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Color scheme "high contrast - inverted" master - green, sample - pink, overlap - black, background - white
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By using special color combinations for master and sample images it is possible
to highlight analysis results. These schemes are called analytical color
schemes.
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Monochrome image of gel A, which was loaded as master gel
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Monochrome image of gel B, which was loaded as sample gel
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Dual channel image of gel A shown in blue and gel B shown in orange ("decodon").
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This analytical color scheme shows the spots of the master. Spots which are exclusively expressed in the
master gel are highlighted in blue, spots occurring on both gels appear in black ("master only").
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A slight variation of the same scheme shows only spots of the sample gel. Spots exclusively expressed on the
sample gel are highlighted in orange. Spots appearing in both gels are again colored in black ("sample only").
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This image shows only spots appearing on both gels. Spots that are expressed either on the master or on the sample
gel are hidden ("intersection").
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This color scheme aids in the construction of reference gels by generating an averaged gel from gel A and gel B
("average").
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