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Table of Contents

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Log on with your QUT username and password

*NOTE: you need to be connected to the QUT network first, either being on campus or connecting remotely via VPN.

Option2: Install R and RStudio on your own PC

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To access this count table:

Go to the/sandpit/demo/run3_full_pipeline/ folder that contains the results from running the nfcore/rnaseq pipeline. The output folders from task 3 look like this:

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Now let’s find the full path to the ‘salmon.merged.gene_counts.tsv’ file:

  • Windows:

  • Mac:

    • cd /folder/that/contains/feature_counts/

    • pwd

  • Rstudio:

    • Open Rstudio, go to the top bar a click on “Session” → “Select working directory: → “Choose directory

    • The path to the directory will be printed in Rstudio console, copy and paste in line 1 of the script ‘RNAseq_DESeq2_analysis.R’ (see below)

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