Analyze data using R (statistical package)

Updated 1,160 Days AgoPublic

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Installing and using romero.gateway package in RStudio

Windows

This example uses Windows 10, other Windows version should be similar.

• Install a JDK, for example AdoptOpenJDK. Make sure to tick the checkbox to set the JAVA_HOME and PATH environment variables during the installation.
• In Rstudio, go to Tools > Install Packages...
• Install the dependencies httr, jpeg and rJava from CRAN:

• Download the latest romero.gateway release zip from Github and install it:

Analyze OMERO data using R

Load the library:

library(romero.gateway)

Connect to OMERO (Enter your gaspar credentials)

user_name = readline('Username: ')
user_password = readline('Password: ')
server <- OMEROServer(host = 'omero.epfl.ch', port = 4064, username=user_name, password=user_password)
server <- connect(server)
paste('Successfully logged in as', server@user$getUserName())

You can see examples on how to analyze OMERO data with R in this jupyter notebook:

This notebook uses the EBImage package. If you don't have it, you can download it from here.