The FlowJo Exchange is a repository maintained by FlowJo, LLC 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.
The Cell Ontology plugin queries a cell ontology database and matches the cell or population in your FlowJo workspace to specific cell types. Almost all applications in flow cytometry rely on phenotype markers, and the CellOntology database maintains a record of published definitions of cell types with a myriad of phenotypic markers and their associated functions, etiologies, or biological contexts.
This plugin retrieves suggested nomenclature based on a ranking score, creating a single CSV file containing suggested names and a cladogram detailing your cells' relationship to other known cell types. Note: This plugin uses the flowCL package within an R statistical computing environment.
This is a new version of this plugin, and is recommended for users of FlowJo 10.2 or later.
|Download the plugin now
View the plugin documentation
There are four types of tools here, which can all be used with FlowJo:
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.
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:
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.
The plugins listed below are included with FlowJo v10.1r7 and later. We include them here in case you need to update or re-install them. They can be installed in the same manner as any other plugin—see How to Install FlowJo Plugins above or our plugin documentation for details.
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.