Introduction to Bash: Using the Terminal for Bioinformatics

This course is targeted at all researchers in biological and medical research wishing to develop their bioinformatics capacity, and is now offered over 4 x 2hr sessions across multiple days/weeks.

  • Postgraduate students can receive credit for 8 CaRST hours upon completion of the course. 
  • Undergraduate Students and other researchers are also welcome.


This workshop is designed to give you the prerequisite skills for accessing High Performance Computing (HPC) machines, like Phoenix. Basic data management strategies will also be covered in the context of next generation sequencing data.

The specific areas which will be covered are:

  • Navigating through files and directories
  • Basic bash tools and commands
  • Regular Expressions
  • stdout, stderror and re-direction of output
  • The stream editor sed
  • Writing bash scripts
  • Basic job submission to a High Performance Computing (HPC) system

Prerequisites and co-requisite courses


No dates have been scheduled for 2019.

Please contact the Bioinformatics Hub to express your interest in attending the next event.

Tagged in training, hand-on workshops