Overview
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The PCs in the computer labs already have R and RStudio installed. If using this option, you will need to install the required R packages (unlike rVDI). The code for installing these packages is in the analysis section below.
Open PuTTy and paste the text below into the command prompt:
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qsub -I -S /bin/bash -l walltime=4:00:00 -l select=1:ncpus=16:mem=128gb |
After a few minutes interactive mode will start. You will now be able to do all your analysis - including running Nextflow and Nanopore workflows - in this interactive session.
Map your HPC home directory
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Create a new script by ‘File’ → “New File” → “R script”. Now hit ‘File’ → ‘Save’ and save the script in H:/meta_workshop/R_analysis (i.e. the directory we just created). Give the script a name. Call it “R_metagenomics”.
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