This option only appears if you are using FCS Express Flow or FCS Express Plus.

 

The FCS File Options category (Figure 20.53 ) allows the user to set default axis range, scaling, and division factors for scatter and fluorescence parameters on an instrument-specific basis.

 

Figure 20.54   FCS File Options> Instrument Specific Settings dialog

Figure 20.54   FCS File Options> Instrument Specific Settings dialog

 

Information on how to define Instrument-Specific Settings is in the table below.

 

Option

Explanation

number1 Instrument Specific Settings

The instrument origin of data files will be recognized by the cytometer ($CYT) keyword, which is recorded as metadata by the cytometer at the time of acquisition.  Several Instrument-Specific Settings have already been defined in FCS Express, which may be edited below or Removed. You may define instrument-specific settings for additional cytometers by clicking Add, entering a Name for the condition (which may be the name of the cytometer, for example), and a Condition which specifies the $CYT keyword for data files from that instrument with the following syntax with quotes:  "<$CYT>" = "value of the $CYT keyword for your data files".  Note that you may Duplicate an existing instrument-Specific Setting for convenience, and subsequently edit the Name, Condition and/or any of the settings below.  The order in which the Instrument Specific Settings appear may be edited using the up and down arrows.

number2 Range Options (for Scatter and/or Fluorescence Parameters)

Default Range Options may be specified for Scatter and/or Fluorescence Parameters.  You may choose from four mutually exclusive options:

Automatic:  FCS Express will set the plot Range according to the Minimum and/or Maximum specified by the metadata (keywords) in the data file.  This is the default behavior of FCS Express, if no Instrument-Specific Settings are defined for the data files specified in Instrument Specific Settings > Condition.
Based on data:  let FCS Express detect the actual minimum and maximum of your data for each parameter, and set the plot Range accordingly (a margin will be added so that data does not appear cut off on the plot boundaries).
Percentile:  FCS Express will set the plot Range according to the specified Percentile.  This is a convenient way to automatically not plot outliers which may located far beyond the data of interest.  In effect, your plots will already be zoomed into your highest-level region of interest.
Manual:  specify a Minimum and Maximum for the plot Range.

number3 Scale Options (for Scatter and/or Fluorescence Parameters)

Default Scale Options may be specified for Scatter and/or Fluorescence Parameters. In the drop down menu, select the default scaling you wish to apply for the data files from the instrument specified in Instrument Specific Settings> Condition above.  The Automatic box will become unchecked once an option is specified.

number4 Division Factor (for Scatter and/or Fluorescence Parameters)

The Division Factor may be specified for Scatter and/or Fluorescence Parameters.  In addition, the Data Scaling Factor may be specified for both types of parameters.  This allows for the data to be displayed with a different resolution (# of channels) than its native resolution.