Bio-Rad Firmware & Software Updates - Manual (Page 126)

CFX96 Touch, CFX96 Touch Deep Well, CFX Connect, and CFX384 Touch Systems Instruction Manual
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C HART S ETTINGS
The following options are revealed when the Show Chart Settings box is checked: X-Axis
Options, Y-Axis Options, Scaling, Error Type, and Chart Error Bar Multiplier.
X-A XIS O PTIONS
The x-axis option allows you to select the x-axis data of the Gene Expression chart:
• Target. Select this option to graph the target names on the x-axis
• Sample. Select this option to graph the sample names on the x-axis
Y-A XIS O PTIONS
The y-axis option allows you to show the Gene Expression chart in one of these three scales:
• Linear. Select this option to show a linear scale
• Log 2. Select this option to evaluate samples across a large dynamic range
• Log 10. Select this option to evaluate samples across a very large dynamic range
S CALING O PTIONS
Select Normalized Gene Expression ( ΔΔC
q
) to activate the scaling options in the Gene
Expression chart. Select one of these scaling options to calculate and present your data in a
manner that best suits your run design:
• Unscaled. This option presents the unscaled normalized gene expression
• Highest. Scale the normalized gene expression to the highest for each target by dividing
the expression level of each sample by the highest level of expression in all the samples.
This scaling option uses the scaled-to-highest formula
• Lowest. Recalculate the normalized gene expression for each target by dividing the
expression level of each sample by the lowest level of expression in all the samples. This
scaling option uses the scaled-to-lowest formula
• Average. Scale the normalized gene expression to the average for each target by
dividing the expression level of each sample by the geometric mean of the expression
levels for all of the samples. This scaling option uses the scaled-to-average formula
E RROR T YPE
Select an option for the type of error calculations (error bars) in the Gene Expression chart:
• Standard error of the mean (default, SEMs)
• Standard deviation (Std Devs)
C HART E RROR B AR M ULTIPLIER
Select a multiplier for the error bars in the Gene Expression chart. Select one of these integers:
+/- 1 (default), 2, or 3. The type of multiplier changes when you select the error type:
• SEMs for standard error of the mean
• Std Devs for standard deviations
T ARGET S TABILITY V ALUE
Target stability values can be calculated whenever more than one reference gene is used. The
software calculates two quality parameters for the reference genes: