Course on UNIX and Genomic Data - Prague, January 2016ΒΆ
This course aims to introduce the participants to UNIX - an interface that is one of the most convenient options for working with big (textual) data. Special attention is put on working with Next Generation Sequencing (NGS) data. Most of the NGS data formats were designed to be textual, and textual data is where UNIX excels in its versatility. By combining basic UNIX tools one can achieve results that would require finding specialized software for each of the tasks in other environments.
Not knowing ‘the right way’ to do things can be intimidating for the beginning users, so an additional section exploring the ‘best practice’ is available for self learning.
Schedule:
| Friday (14:00-18:00) | |
| Afternoon I | Course Intro, Introduction to Unix |
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Basic Unix |
| Saturday (9:00-18:00) | |
| Morning | Introduction to Genomics, Advanced Unix I |
| Lunch (~ 1.5h) | |
| Afternoon I | Advanced Unix II |
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Data Visualization |
| Sunday (9:00-18:00) | |
| Morning | Introduction to NGS |
| Lunch (~ 1.5h) | |
| Afternoon I | Unix tools for genomics |
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Exercise |
Initial instructions:
Course contents:
Etherpad with ‘live’ code.
Additional reference materials:
Supplemental information: