Introduction to R

Contents

• Before we start
• Getting some data to play with
• Variable, Data Structures and Functions
  • Simple variables
  • Data structures
  • Collections of Data Structures
  • Functions
• Objects
  • Collections of Objects
• Object Orientation, or not
• Some practically useful things
• Manipulation of Objects
• Functions and operators in R
  • Functions
  • Operators
• Arguments to functions
• Return values from functions
  • A note about assignment operators in R
• Some Common Functions
• Statistical Models in R
  • Example: Normal distribution.
• Modes and Classes of Objects
  • Mode
  • Class
  • Type
  • str()
• Vectors
• Factors
• Recycling in Vector operations
• Matrices
  • Subscripting in Matrices
• Arrays
• Lists
• Data Frames
• Headers
  • Noheader. Filename noheader.tsv
  • Header type 1. Filename header1.tsv
  • Header type 2. Filename header2.tsv
• User defined functions
• Help
• Packages
• Calculating a new column
• Sorting a data frame
• Truth in R
• Conditional subscripting
• Regular Expressions
• Factors again
• Plotting
• Par
• Histograms
• Attaching a data frame
• Clearing your work space
• More plotting parameters
• Plotting to a file
• Some other plotting commands
• Linear modelling
• Hypothesis testing
• Sourcing and Sinking
• Batch Processing
• Scripting
• RNASeq
  • Use of the package edgeR to analyse RNASeq data
• Using R on the HPC
• Miscellanea
  • Builtin constants
  • as.* functions
  • system()
  • The initial set up explained
• Closing comments