Course Schedule
6-7/3/2018

Installation instructions

Schedule: Day 1

Morning, 0930-1230

  • Welcome and introduction (Leighton, Sue, Peter)
  • Introduction to Linux, Jupyter and Python (Peter)
  • Introduction to sequence data and bioinformatics (Peter)

Afternoon, 1330-1700

  • Mining bioinformatics databases (Leighton)

Schedule: Day 2

Morning, 0930-1230

  • Reproducible research (Leighton)
  • Worked example (Peter, Leighton, Sue)

Afternoon, 1330-1700

  • Structural bioinformatics (Sue)
  • Conclusion and wrap-up (Leighton, Peter, Sue)

Goals

Course goals

Provide an introduction to

  • basic computing skills in bioinformatics
  • common bioinformatics tools
  • automation and reproducible research
  • best practices in scientific computing

Best practices in scientific computing

  • Write reproducible analyses for people, not computers.
  • Let the computer do the work.
  • Use a version control system.
  • Don’t repeat yourself (or others).
  • Plan for mistakes.
  • Collaborate.

(abridged from Wilson et al. (2014))