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How to install R dependencies

  1. Install bedboss
  2. Install R: https://cran.r-project.org/bin/linux/ubuntu/fullREADME.html
  3. Download this script: installRdeps.R
  4. Install dependencies by running this command in your terminal: Rscript installRdeps.R
  5. Run bedboss check-requirements to check if everything was installed correctly.

How to install regionset conversion tools:

  • bedToBigBed: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bedToBigBed
  • bigBedToBed: http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bigBedToBed
  • bigWigToBedGraph: http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bigWigToBedGraph
  • wigToBigWig: http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/wigToBigWig