Introduction to Unix

This course is part of the PhD course program of the AMC Graduate School. More information can be found here.

Location:  Amsterdam UMC, location AMC.
Course material: All course material is provided during the course, no need to print anything yourself
Teachers: Rob Wolfram and Barbera van Schaik

Scheduled dates

March 4 and 5, 2020


Unix is a multitasking, multi-user computer operating system, for which many tools in bioinformatics and e-Science have been developed. Many computers or computer clusters that are used in the analysis for large (omics) dataset run Unix as opposed to Windows. Therefore, basis knowledge of Unix provides the biomedical researcher with the skills to access and use powerful computer systems and tools that have been developed for Unix and are used on a routine basis in bioinformatics, biostatistics and e-Science.


  1. Introduction to Unix;
  2. The basic commands;
  3. Shell scripting;
  4. awk, sed.


Day 1

Introduction to Unix (pdf)

Day 2

Data analysis on unix/linux systems (pdf)
Exercises sequence analysis (pdf)

Putty settings

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Category: Session

Category: SSH: KEX

Category: SSH: X11