FlowJo v9 Manual


Graph Window

When you double-click a sample in the Workspace window, a Graph window opens. It's features are described below.

  1. The name of the population displayed.
  2. Gating tools.
  3. The SciBook tool, lets you add the graph to a notebook that is saved with the workspace. You can annotate or just track pictures, text, tables etc. If you update a gate or statistic, the SciBook is updated too.
  4. Opens a second copy of this graph.
  5. Shows the same type of graph of the previous or next sample in the Workspace list. Hold down the Option key and all open graph windows will cycle to the adjacent sample.
  6. The Up arrow displays the graph used to gate the current population. The Down arrow displays the graph of the subpopulation in a currently selected gate.
  7. Click inside any gate to select it.
    Click and drag a selected gate to move the gate independent of the population inside it. (Cursor is a hand.)
    Click and drag the black square handles (red arrow) to adjust the shape of the gate. (Cursor is a crosshair.)
  8. Three black Disclosure Triangles open when clicked to reveal more tools. (Below)
  1. Here you can choose the graph type and adjust properties like color, resolution and scaling. Options are active if they can be applied to the current graph type.
  2. If a gate is selected, its name and Frequency of Total will appear here. Uncheck Gate Events Inside to gate the events outside the shape. Check Magnetic Gate if you want the gate to adjust to event density when applied to a new population. Draw Tinted adds a transparent tint to the inside of the gate. Click on the N to choose what color to use for the tint.
  3. This box contains a list of statistics applied to the population in the graph. Next to the triangle is the number of events in the graph followed by the number of events in the parent population.

Go back to the overview of the Graph Window.

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