FlowJo has several analysis platforms that provide capabilities beyond the gating and statistics used for most simple data analysis.  All analysis platforms are fully integrated into the FlowJo paradigm:  i.e., they can be easily replicated to multiple samples (usually, by using Groups), they are easy to edit, and all operations are saved with the Workspace for your permanent record.

Kinetics.  The kinetics platform gives the ability to analyze your data as a function of time during collection.  If you did not collect a "Time" parameter, FlowJo will add one for you.  Kinetics analyses provide you a powerful tool for computing parameter statistics as a function of time and exporting the data or graphics, or statistics computed as a function of time.  You can even use the Layout Editor to overlay time-series graphs to compare different samples.

Cell Cycle Analysis.  FlowJo gives you a sophisticated, yet easy-to-use interface to model DNA/Cell cycle data.  You can simultaneously compute several different standard models, with the ability to constrain different model parameters with the click of a mouse.

Calibration.  Using this platform, you can calibrate any of your fluorescence parameters.  The platform can use a calibrated bead set as a standard, a stained sample as a reference, or numbers that you enter to define the calibration manually.  FlowJo creates a calibrated parameter and displays all graphs and statistics in calibrated units such as absolute number of molecules per cell.

Compensation.  Sometimes your data is not properly compensated... sometimes, it is not possible to compensate your data on the machine because of the complexity of the analysis.  FlowJo's compensation platform makes compensating data much easier than compensation on the machine; you are always guaranteed a correctly-compensated output!

Derived Parameters.  Let FlowJo calculate a ratio of two parameters, add a time parameter (in case you want to do Kinetics analyses), or convert between log and linear scaling.

Movies.  An analysis platform unique to FlowJo:  view your data dynamically.  Use the Moview Platform the generate graphs as a function of time (kinetic analyses), or to generate a graph of one or two parameters as a function of a third.  This unique visualization lets you uncover subtle relationships in your data that would be impossible to see otherwise.