Click the heading of a topic to see the lecture slides or lab instructions. Slides are added as the course progresses.

Lunches at Universitetsklubben, Olaus Magnus väg 29, 583 30 Linköping

Monday 21st
Room: Odén, B-huset, Campus Valla
09.00-09.15 Registration and Welcome, presentation of SciLifeLab (Alice Sollazzo)
09.15-10.00 Lecture: Introduction to Linux (Valentin Georgiev)
10.00-12.00 Exercise: Introduction to Linux (Valentin Georgiev + Martin Dahlö, Anders Sjölander)
12.00-13.00 Lunch at Universitetsklubben
13.00-14.00 Lecture: Introduction to UPPMAX (Valentin Georgiev)
14.00-17.00 Exercise: Introduction to UPPMAX (Valentin Georgiev + Martin Dahlö, Anders Sjölander)

Tuesday 22nd
Room: Odén, B-huset, Campus Valla
09.00-09.30 Lecture: File types in bioinformatics (Valentin Georgiev)
09.30-12.00 Exercise: File types in bioinformatics (Valentin Georgiev + Martin Dahlö, Anders Sjölander)
12.00-13.00 Lunch at Universitetsklubben
13:00-14:00 Lecture: Advanced Linux usage (Valentin Georgiev)
14:00-17:00 Exercise: Advanced Linux usage (Valentin Georgiev + Martin Dahlö, Anders Sjölander)

Wednesday 23rd
Room: Odén, B-huset, Campus Valla
10.00-12.00 Lecture: NGI Stockholm (Phil Ewels)
12.00-13.00 Lunch at Universitetsklubben
13.00-14.00 Lecture: NGS workflow (Malin Larsson)
14.00-17.00 Exercise: NGS workflow part I (Malin Larsson + Diana Ekman, Dag Ahrén)

18:00- Course dinner at De Klomp, S:t Larsgatan 13, 582 24 Linköping

Thursday 24th
Room: Odén, B-huset, Campus Valla
09:00-12.00 Exercise: NGS workflow part II (Malin Larsson + Diana Ekman, Dag Ahrén)
12.00-13.00 Lunch at Universitetsklubben
13.00-14:00 Lecture: RNA sequencing, transcriptome and expression quantification (Dag Ahrén)
14.00-17:00 Exercise: RNA sequencing, transcriptome and expression quantification part I (Dag Ahrén, Jakub Orzechowski Westholm, Roy Francis)

Friday 25th
Room: Odén, B-huset, Campus Valla
09:00-12:00 Exercise: RNA sequencing, transcriptome and expression quantification part II (Dag Ahrén, Jakub Orzechowski Westholm, Roy Francis)
12.00-13.00 Lunch at Universitetsklubben
13.00-13.20 Lecture: The Bioinformatics Infrastructure in Sweden (Dag Ahrén)
13:20-15.00 Open discussions (Dag Ahrén, Malin Larsson, Roy Franciso)