Prep Work #2 - R Markdown and Unix

Learning Objectives

  1. Learn some analysis workflows
    • Obtain data programmatically
    • Use R Markdown documents to communicate analyses
  2. Practice manipulating genomics data using R
    • Subset data.frames: one or more columns, a block of rows, rows matching a specific column
    • Visualize data: boxplot, barplot, scatterplot
  3. Learn the Unix command line

Tasks

  1. Install software (if not already done)
    • Slack for troubleshooting help
    • RStudio to provide a rich R environment (must be version 1.1.423 or higher)
    • R (must be version 3.4.3 or higher)
  2. Explore RNA-seq data in R ( preview )
    • Video example
    • Download assignment ( prepwork-apr.Rmd )
      • Make sure to save file with extension .Rmd and not .Rmd.txt
    • Save work as prepwork-apr-lastname.Rmd and email to your TA
  3. Codecademy’s “Learn the Command Line”