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Using spant on BEAR

Interactive use

  • Navigate to : https://portal.bear.bham.ac.uk
  • Navigate to the "Interactive Apps" tab and select "RStudio Server".
  • Set "Number of hours" to the duration of the session.
  • Set "Number of cores" to 4 to allocate 16 GB of memory.
  • Press "Launch".

Installing spant for the first time

Type the following in the Console (lower left panel) to install the latest stable version of spant:

install.packages("spant", dependencies = TRUE)

Or the development version from GitHub (requires the devtools package):

install.packages("remotes")
remotes::install_github("martin3141/spant", ref = "devel", dependencies = TRUE)

Note, installing for the first time will require compilation of various packages and will take some time.

Batch use

The use of Apptainer containers are recommended for batch analyses using spant to ensure consistency. A guide to building and using these containers on BlueBEAR may be found on github : https://github.com/martin3141/mrs_apps_containers