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 are intentionally text based because the authors wanted to use UNIX for the processing. By combining basic UNIX tools one can achieve results that would require programming or finding specialized software for each of the tasks in other environments.
Not knowing 'the right way' to do things can be intimidating for beginners, so an additional section exploring 'best practice' is available for self learning.
Schedule:
| Friday (14:00-18:00) | |
| Afternoon I |
|
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Unix - Basic |
| Saturday (9:30-18:30) | |
| Morning |
|
| Lunch (~ 1.5h) | |
| Afternoon I | Unix - Advanced II |
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Graphic Session |
| Sunday (9:30-18:30) | |
| Morning |
|
| Lunch (~ 1.5h) | |
| Afternoon I | Genomic tools |
| Afternoon Break (~ 0.5h) | |
| Afternoon II | Exercise (Variant quality) |
Initial instructions:
.. toctree:: :maxdepth: 1 install connect
Course contents:
Slack chat room.
.. toctree:: :maxdepth: 2 01-starter 02-genomics 03-advanced 04-graphics 05-quality 06-assembly 07-gtools 08-var-quality
Additional reference materials:
.. toctree:: :maxdepth: 1 links best-practice reference formats more-exercise
Supplemental information:
.. toctree:: :maxdepth: 1 prepare slides