GitHub), and installed within your local R environment. The appropriate files are then downloaded from or other repository (ex. R packages are installed by typing a specific string of commands from within the R console window.Open R and install the required R packages for a given plugin.Restart FlowJo. Plugins that utilize R will now know where to look for and open the R environment.If installing R on a PC: R can be installed in any folder, but you must tell FlowJo the location of your R installation by selecting it in the Diagnostics panel of your FlowJo preferences.If you install R in a folder other than Applications, you must specify the full path. Though the R application is located in the Applications folder, the actual executable file is located within the above mentioned path. Set the R path by typing “/usr/local/bin/R” (no quotes) within the box. If installing R on a Mac: Install R in your Applications folder.Follow the links and installation directions for your operating system. Download R from the Comprehensive R Archive Network (CRAN) website. To run a Plugin that calls to the R statistical computing environment: For these plugins to work, R must first be installed and setup with the appropriate R packages. Please note some plugins utilize the R statistical computing environment to produce results. Installing the R statistical computing environment As new plugins become available, they will be posted for download from the FlowJo Exchange website, which can be accessed from within FlowJo under the Plugins Menu.Restart FlowJo. Your plugins should now appear listed in the Plugins menu.If you do not see individual plugins listed within the Plugins menu following installation, you may need to tell FlowJo the location of the plugins folder by specifying the folder’s file path in the Diagnostics section of FlowJo’s Preferences (FlowJo / Preferences / Diagnostics).(Workspace Tab –> Populations Band –> Plugins menu) Plugin actions can be accessed and initiated from within FlowJo under the Plugins Menu.Add your plugin of interest to the plugins folder on your machine, and restart FlowJo:.On a Mac, it is typical to create a plugins folder in the “Applications”. On a Windows computer this folder will already exist within the “FlowJo_v10.x” folder in the “Program Files”. Create a folder named “plugins” on your computer.These can be installed and used as shown below. Plugins are executable java files that extend functionality of the FlowJo application.
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