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When you click on the "i" button in the
graph window, or select "Graph Info..." from the Graph
menu, you are shown the following floating window. From this window,
you can modify the attributes of the current graph (or currently-selected
gate). The first time you are shown this window, the bottom two
"sections" are hidden; click on the triangles to reveal
them.
Use the gating tools (top) when you want to create
a new gate of a particular kind. The quadrant tool is a special
case: it creates four gates (click
here for more information). The next
section lets you select which parameters to view; the third section
defines the graph type and options. The fourth section is disabled
unless the current graph is a histogram or CDF, in which case you
could select to change the vertical (Y-axis) scaling for the plot.
Finally, the bottom section is enabled whenever you have a single
gate selected in the graph window. Here you can choose to gate for
events inside or outside the gate, and choose to draw the gate in
a different color than the default. Tinting the area inside the
gate only alters the drawing of the gate; it does not change the
colors of any events (dots) on any of the graphs.
"Magnetic" gates automatically move
to accomodate the maximum event density. For more information, click
here.
The preferences dialog specifies whether you must click on a gate
tool to create a new gate; or whether FlowJo will "auto-select"
a gate tool when you click in a graph window.
To make selected changes, you must click on the "Apply"
button, which becomes active once the attributes of this window
do not reflect the current graph. If you hold down the "option"
key while pressing "Apply", then the graph specification
is applied to ALL open windows (at least, to those where it can
be applied).
You do not have to close this window; you can leave it in one corner
of your screen. It automatically updates itself to reflect any new
graph window that you open.
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