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

Monday 12th
Room: NA340, Naturvetarhuset A (Linnaeus väg 41)
09.00-09.15 Registration and Welcome, presentation of SciLifeLab (Nina Norgren)
09.15-10.00 Lecture: Introduction to Linux (Anders Sjölander)
10.00-12.00 Exercise: Introduction to Linux (Anders Sjölander, Martin Dahlö, Nina Norgren, Jeanette Tångrot, Allison Churcher)
12.00-13.00 Lunch at Universum
13.00-14.00 Lecture: Introduction to UPPMAX (Anders Sjölander)
14.00-17.00 Exercise: Introduction to UPPMAX (Anders Sjölander,Martin Dahlö, Nina Norgren, Jeanette Tångrot, Allison Churcher)

Tuesday 13th
Room: NA340, Naturvetarhuset A (Linnaeus väg 41)
09.00-09.30 Lecture: File types in bioinformatics (Martin Dahlö)
09.30-12.00 Exercise: File types in bioinformatics (Martin Dahlö, Anders Sjölander, Nina Norgren, Jeanette Tångrot, Allison Churcher)
12.00-13.00 Lunch at Universum
13:00-14:00 Lecture: Advanced Linux usage (Martin Dahlö)
14:00-17:00 Exercise: Advanced Linux usage (Martin Dahlö, Anders Sjölander, Nina Norgren, Jeanette Tångrot, Allison Churcher)

Wednesday 14th
Room: NA340, Naturvetarhuset A (Linnaeus väg 41)
09.00-10.00 Lecture: NGS workflow (Nina Norgren)
10.00-12.00 Exercise: NGS workflow part I (Nina Norgren, Allison Churcher, Jeanette Tångrot)
12.00-13.00 Lunch at Universum
13.00-15.00 Exercise: NGS workflow part II (Nina Norgren, Allison Churcher, Jeanette Tångrot)
15.00-16.00 Lecture: data management (Niclas Jareborg)
16.00-17.00 Exercise: NGS workflow part II (Nina Norgren, Allison Churcher, Jeanette Tångrot)

18:00- Course dinner

Thursday 15th
Room: NA340, Naturvetarhuset A (Linnaeus väg 41)
09:00-10.00 Exercise: NGS workflow part II (Nina Norgren, Allison Churcher, Jeanette Tångrot)
10:30-12.00 Lecture: Next generation sequencing and bioinformatics at NGI (Phil Ewels)
12.00-13.00 Lunch at Universum
13.00-14:00 Lecture: RNA sequencing, transcriptome and expression quantification (html, pdf) (Roy Francis)
14.00-17:00 Exercise: RNA sequencing, transcriptome and expression quantification part I (Nina Norgren, Allison Churcher, Roy Francis, Dag Ahrén)

Friday 16th
Room: NA340, Naturvetarhuset A (Linnaeus väg 41)
09:00-12:00 Exercise: RNA sequencing, transcriptome and expression quantification part II (Nina Norgren, Allison Churcher, Roy Francis)
12.00-13.00 Lunch at Universum
13.00-13.20 Lecture: The Bioinformatics Infrastructure in Sweden (Nina Norgren)
13:20-15.00 Open discussions (Nina Norgren, Allison Churcher, Roy Francis)