Andrea Telatin
Andrea Telatin Senior bioinformatician at the Quadram Institute Bioscience, Norwich.

Linux Command Line for Bioinformatics

Linux Command Line for Bioinformatics

A tutorial on the Linux command line (CLI) and its use in bioinformatics.


  • :one: The first commands - Open a terminal and start trying the first commands (like pwd, cd, mkdir, man, wget) and familiarise with absolute and relative paths.
  • :two: Text files and the command line - Some more commands (like find), and a first look at text files and their manipulation (wc, head, tail, grep).
  • :three: Redirection - how to save the output from programs, and the difference between standard output and standard error.
  • :four: Pipes - combining multiple commands with UNIX pipes
  • :five: IGV: A quick overview - Using IGV to inspect common file formats
  • :six: SSH and remote servers - Working on a remote server from the command line or using VS Code
  • :seven: Some file formats:

See also: