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

Monday 23rd
Room: Trippelrummet, E10, ground floor
09.00-09.15 Registration and Welcome, presentation of SciLifeLab (Elina Staaf)
09.15-10.00 Lecture: Introduction to Linux (Martin Dahlö)
10.00-12.00 Exercise: Introduction to Linux (Valentin Georgiev, Jacques Dainat, Manfred Grabherr)
12.00-13.00 Lunch at BMC restaurant
13.00-14.00 Lecture: Introduction to UPPMAX/UPPNEX (Martin Dahlö)
14.00-17.00 Exercise: Introduction to UPPMAX/UPPNEX (Mahesh Panchal, Valentin Georgiev, Jacques Dainat)

Tuesday 24th
Room: Trippelrummet, E10, ground floor
09.00-09.30 Lecture: File types in bioinformatics (Jacques Dainat)
09.30-12.00 Exercise: File types in bioinformatics (Manfred Grabherr, Valentin Georgiev, Jacques Dainat)
12.00-13.00 Lunch at BMC restaurant
13:00-14:00 Lecture: Advanced Linux usage (Jacques Dainat)
14:00-17:00 Exercise: Advanced Linux usage (Mahesh Panchal, Jacques Dainat, Valentin Georgiev)

Wednesday 25th
Room: Trippelrummet, E10, ground floor
09.00-11.00 Lecture: Next Generation Sequencing Overview (Olga Vinnere Pettersson)
11:00-12.00 Lecture: NGS and bioinformatics analysis pipelines (Adam Ameur)
12.00-13.00 Lunch at BMC restaurant
13.00-14.00 Lecture: NGS workflow (Sebastian DiLorenzo)
14.00-17.00 Exercise: NGS workflow part I (Sebastian DiLorenzo, Per Unneberg, Lucile Soler, Johan Reimegård)

18:00- Course dinner at TBA

Thursday 26th
Room: Trippelrummet, E10, ground floor
09:00-12.00 Exercise: NGS workflow part II (Sebastian DiLorenzo, Martin Norling, Lucile Soler, Manfred Grabherr)
12.00-13.00 Lunch at BMC restaurant
13.00-14:00 Lecture: RNA sequencing, transcriptome and expression quantification (Thomas Källman)
14.00-17:00 Exercise: RNA sequencing, transcriptome and expression quantification part I (Thomas Källman, Martin Norling, Moritz Buck, Manfred Grabherr)

Friday 27th
Room: Trippelrummet, E10, ground floor
09:00-10:00 Lecture: Data management (Niclas Jareborg)
10:30-12:00 Exercise: RNA sequencing, transcriptome and expression quantification part II (Thomas Källman, Johan Reimegård, Moritz Buck, Manfred Grabherr)
12.00-13.00 Lunch at BMC restaurant
13.00-13.20 Lecture: The Bioinformatics Infrastructure in Sweden (Björn Nystedt)
13:20-15.00 Open discussions (Björn Nystedt, Olga Vinnere Pettersson, Adam Ameur, Manfred Grabherr)