Select the Workspace button in the Preferences tool to open the Workspace preferences.

Sample Display Naming

FCS Default: Uses the FCS standard identification keyword as the display name for samples in

the workspace.

Use Short File Name: Uses the file name as seen by the operating system for sample names

Use Full Path and File: Used when resolving many samples with the same name. In this case,

FlowJo will show you both the file path (e.g.file://localhost/Users/yourname/experiment/datafile.fcs)

Keyword Combination: This changes the file name the any keyword preferred. Sort the

workspace by keyword in this drop down box Note: This is different when data is present, as

shown here. Press to clear the keyword combination.


Draw Row Borders: Draw horizontal lines between successive rows in the table

Draw Column Borders: Draw vertical lines dividing all the columns

Sort order keyword: Sort the samples in the workspace according to the value of any keyword. If

samples have a “well id” keyword, samples will now be sorted by the keyword “well id”, or if that keyword

is not found, then by the sorted by  preference. That means for some data the sorting preference may be


Decimal Precision: Enter number of decimal places shown in statistics values

Significant Figures: Select to use 1.23E2 formatting ( this format is called Scientific notation)

Show all keywords in menus: Keyword menus will show all possible keywords

Mute Sounds: Controls whether or not FlowJo plays sounds for operations, like copying graphs

or adding statistics

Check Sample Quality As Loaded: If enabled, all files will be examined for consistency by

medians of parameters v. time upon loading (this may slow sample load time).  One can also

check sample quality on individual or groups of samples using the “Check Sample Quality” button

in the Tools tab under the instrumentation band.

Disable Undo: If checked, undo will be bypassed. May improve performance.

Quit if last workspace closes: If checked, closing the last workspace will exit FlowJo.