FlowJo is a software package for analyzing flow cytometry data. Files produced by modern flow cytometers are written in the Flow Cytometry Standard[1] format with an .fcs file extension. FlowJo will import and analyze cytometry data regardless of which flow cytometer is used to collect the data.
In FlowJo, samples are organized in a "Workspace" window, which presents a hierarchical view of all the samples and their analyses (gates and statistics). Viewing an entire expent in a Workspace pes organizing and managing complex cytometry expents and produces detailed graphical reports. FlowJo's ability to automate repetitive operations facilitates the production of statistics tables and graphical reports when the expent involves many samples, parameters and/or operations.
Within a workspace, samples can be grouped or sorted by various attributes such as the panel of antibodies with which they are stained, tissue type, or patient from whom they came. When an operation on a group is initiated, FlowJo can perform the same operation on every sample belog to that group. Thus, you can apply a gate to a sample, copy it to the group, and that gate will be automatically placed on all samples in the group.
FlowJo provides tools for the creation of histogram and other plot overlays, cell cycle analysis. calcium flux analysis, proliferation analysis, quantification, cluster identification and backgating display.
FlowJo's strength is in analyzing whole expents encompassing many related samples. In addition to gating and statistics, FlowJo has specialized analysis platforms for assays involving DNA/Cell Cycle, Kinetics, and Proliferation, among others. FlowJo's sophisticated tools allow for generation of statistics, graphs, tables, web pages, and even movies. FlowJo integrates remote data hosting services (LIMS) and supports "cloud" deployment for excellent scaling of performance in a demanding, high-throughput environment.



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