Welcome to the Exchange
The FlowJo Exchange is a repository that allows users to upload annotated scripts and download shared scripts. Plugins are a new addition to the Exchange that allow users to create their own extended functionality for the FlowJo application. The open plugin architecture introduced with 10.1r7 allows FlowJo users access to cutting-edge tools that can be integrated into their current FlowJo analysis workflows, so any tool can be integrated into FlowJo.
Featured: FlowClean Plugin
The FlowClean plugin is an algorithm that automatically identifies and flags fluorescence anomalies in flow cytometry data so that these can be easily removed. The FlowClean algorithm utilizes the R statistical computing environment and integrates FlowClean’s functionality into FlowJo. The algorithm performs calculations on the provided samples, and creates a new population with fluorescence anomalies removed.
Note: FlowClean is a third-party plugin. Support for this plugin may be limited.
|Download the plugin now
View the plugin documentation
There are three types of tools here, which can all be used with FlowJo.
1. Plugins (NEW)
Yeah, we can cluster that. If you have an algorithm or application that needs to do something upon opening or saving, OR you would like exported population data and user-specified parameters passed to your application, we can do that. In fact, we can bring the clusters back into FlowJo so everyone can use what you have written. To learn more, please see our FlowJo for developers page (coming soon).
Note: You must be running FlowJo version 10.1r7 or higher to use plugins. Earlier versions do not support plugins.
See these examples for plugin development and documentation done well.
How to Install FlowJo Plugins
- Locate the Plugins folder on your computer.
- By default, this is the Applications > Plugins folder for Macintosh computers, and the Program Files > FlowJo > Plugins folder for Windows PCs.
- To designate a different folder for plugins, see Installing Plugins, Step 4.
- Follow the link on this page for the desired plugin.
- In the file list, click the link for the file ending in .jar, then click the Download button.
- In the Downloads folder on your computer, locate the downloaded JAR file on your computer, and move it into the Plugins folder.
- Re-start FlowJo.
Image credit: Jim Slatton, The Noun Project, Creative Commons license.
Image credit: Delwar Hossain, The Noun Project, Creative Commons license.
Image credit: ProSymbols, The Noun Project, Creative Commons license.
Image credit: Alfredo Hernandez, The Noun Project, Creative Commons license.
FlowJo's script editor is integrated directly into the core of FlowJo, and gives real-time access to statistics, gates, groups, and metadata to create custom analysis tools within FlowJo. This access makes it easy for:
- Biologists to drop some of the scripts hosted here into FlowJo to help with their particular application (such as index sorting).
Scripts produced in the Script editor can be saved as text files, shared, and run by anyone in three clicks by loading them into a FlowJo workspace and clicking Run.
Some of us spend our weekend playing with visualizations (yes, seriously), and we'll post some here with some instructions for use.
Need to cite the Exchange?
If you use these tools in your research, please give credit as follows:
J. Quinn, S. Duncan, M. Golden, M. Swindle, S. Weiss, M. Stadnisky. FlowJo Exchange : A means of meeting the computational needs of the flow community. CYTO 2015: XXX Congress of the International Society for the Advancement of Cytometry. Glasgow, Scotland. June 2015.
...and please be sure to let people know what script you used.
Drop us a line at email@example.com or firstname.lastname@example.org.