Applying Compensation Matrix

Samples Panel

Components of the Graph Window

The Graph Window in FlowJo allows users to quickly gate, navigate, and add statistics to populations...

Gating Hierarchy

For more information, visit our documentation: https://docs.flowjo.com/flowjo/workspaces-and-samples...

Adding Statistics

For more information, visit our documentation:https://docs.flowjo.com/flowjo/graphs-and-gating/gw-ov...

Using the T-Button in FlowJo

Layout Editor

For more information, visit our documentation:https://docs.flowjo.com/flowjo/graphical-reports/

Table Editor

For more information, visit our documentation:https://docs.flowjo.com/flowjo/tabular-reports/te-expo...

Combination Boolean Gates

For more information, visit our documentation:https://docs.flowjo.com/flowjo/graphs-and-gating/

File Formats

For more information, visit our documentation:https://docs.flowjo.com/flowjo/workspaces-and-samples/...

Using Templates

For more information, visit our documentation:https://docs.flowjo.com/flowjo/advanced-features/maket...

Data Scaling

For more information, visit our documentation: https://docs.flowjo.com/flowjo/workspaces-and-samples...

Tips and Tricks in FlowJo™ Software

Quick FlowJo tips and tricks from our experts.

Installing Plugins

Reconnected FCS Files in FlowJo

Changing the location of files or the workspace will disconnect the two.If you have ongoing issues w...

FlowJo Archive Files

Normally data analysis in FlowJo is done in workspace files, but if you'd like to share data with ot...

Compensation and Parameter Mismatch

If you run into this error it's usually due to a mismatch between the parameters of the sample and c...

Changing Stain Names in FlowJo

Reconnect Derived Parameters

Derived parameters are created when running tSNE analysis as well as certain plugins. The parameters...

Simple Batching

Batching by sample is the easiest way to quickly generate the same figures for each sample in a grou...

Adding Keywords to a Batch Report

Batching by Panel & Batching Overlays

It is possible to batch overlayed populations using the batch by panel option. Batching by this opti...

Batching Using a Keyword/Value Series

Sometimes it is not simple to identify to FlowJo which samples need to be included in a batch report...

Using Iteration to Populate Layouts in Templates

Before saving a workspace as a template we need to inform FlowJo how to connect the figures in our l...

Create an Overlay of Two Different Plot types in a Layout

Want to overlay two different plot types? This can be done in the Layout Editor by removing the back...