FlowJo for Macintosh - Version 9

The outline of the Reference Manual is shown below. Click on any topic to learn more about it; or use the navigation buttons on the left to go to the overview of any section.

Creating derived parameters (time, ratios, log <-> linear conversion)
Compensation
Calibrated Parameters (quantitation of absolute molecules per cell)
Kinetics
Cell Cycle
Proliferation Studies
Population Comparison
Multiple Sample Comparison
Clustering
Overlay Graphs
Computing Background Gates
Display Transformation (visualize compensated data without cells squished against the axis and digital data without picket fences)
Downsampling and Data Reduction

Spectral Compensation

Output:

Menus

Preferences

Tips and Techniques:

Usage Notes:

If this is your first time learning about FlowJo, you should read the pages describing the general concepts behind FlowJo. To see how the current version is different from older versions of the program, click here.

As you use the application, you will see that FlowJo is littered with Help buttons. Almost every FlowJo window has a help button and virtually every time FlowJo notifies you of a problem or asks you to make a decision, there will be a help button. When you click on these help buttons, FlowJo will launch a web browser (such as Google Chrome) and bring up a page that gives you specific information about that particular window, error message, or the decision options. You can also press the "help" key on your keyboard at any time and get information about the front-most window. Use this help feature frequently! You will find many hints about using FlowJo more efficiently.

FlowJo v9 Manual

FlowJo V9

FlowJo for Macintosh - Version 9


	FlowJo v9 Manual
FlowJo V9 Table of Contents Overview Workspace Graphs Platforms Output Techniques Menus Preferences	FlowJo for Macintosh - Version 9 The outline of the Reference Manual is shown below. Click on any topic to learn more about it; or use the navigation buttons on the left to go to the overview of any section. Workspaces: Workspaces: an overview Reading samples into workspaces Groups Batch analysis Statistics Dragging and dropping (copying) analysis nodes & trees Graphs and Displays: Graphic displays Gating: Creating new subpopulations Autogating Backgating Special Analysis Platforms: Creating derived parameters (time, ratios, log <-> linear conversion) Compensation Calibrated Parameters (quantitation of absolute molecules per cell) Kinetics Cell Cycle Proliferation Studies Population Comparison Multiple Sample Comparison Clustering Overlay Graphs Computing Background Gates Display Transformation (visualize compensated data without cells squished against the axis and digital data without picket fences) Downsampling and Data Reduction Principal Component Analysis (PCA) T-Distributed Stochastic Neighbor Embedding (tSNE) Linear Discriminant Analysis (LDA) Downsample Gate Spectral Compensation Output: SciBook Layout Editor Copying graphs to other programs (generating publication-quality graphics) Tables Printing Movies Exporting raw (gated) data for analysis by other programs Menus Preferences Tips and Techniques: Getting help Canceling operations that FlowJo is performing Using the option key Usage Notes: If this is your first time learning about FlowJo, you should read the pages describing the general concepts behind FlowJo. To see how the current version is different from older versions of the program, click here. As you use the application, you will see that FlowJo is littered with Help buttons. Almost every FlowJo window has a help button and virtually every time FlowJo notifies you of a problem or asks you to make a decision, there will be a help button. When you click on these help buttons, FlowJo will launch a web browser (such as Google Chrome) and bring up a page that gives you specific information about that particular window, error message, or the decision options. You can also press the "help" key on your keyboard at any time and get information about the front-most window. Use this help feature frequently! You will find many hints about using FlowJo more efficiently.