Bio-Rad Firmware & Software Updates - Manual (Page 153)

Users and Preferences
140
Specify the default settings for a new Gene Expression data file:
• Relative to. Select a control or zero. To graph the gene expression data originating at 1
(relative to a control), select Control. When you assign a control sample in the
Experiment Setup window, the software automatically defaults to calculate the data
relative to that control. Select Relative to zero to instruct the software to ignore the
control, which is the default selection when no control sample is assigned in the
Experiment Settings window
• X-Axis. Graph the Target or the Sample on the x-axis
• Y-Axis. Graph Linear, Log 2, or Log 10 scale on the y-axis
• Scaling. Select a scaling option for the graph. Leave the graph unscaled. Alternatively,
choose a scaling option to scale to the Highest value or to the Lowest value
• Method. Set the default analysis mode, including normalized expression (
ΔΔC
q
) or
relative expression ( ΔC
q
)
• Error Bar. Select Std Dev. for standard deviation or Std. Error Mean for the standard
error of the mean
• Error Bar Multiplier. Select the standard deviation multiplier to graph the error bars. The
default is 1. Change the multiplier to either 2 or 3
QC Tab
Select the QC tab in the User Preferences window (Figure 97) to specify QC rules to apply to
data in Data Analysis Module. The software validates the data against the enabled tests and
the assigned values.
NOTE: Wells that fail a QC parameter can easily be excluded from analysis in the
QC module of the Data Analysis Window using the right-click menu option.
Figure 97. QC tab in the User Preferences window.
Specify to add cutoff values and to enable the following QC rules:
• Negative control with a C
q
less than xx. Input a C
q
cutoff value
• NTC (no template control) with a C
q
less than xx. Input a C
q
cutoff value