Schedule
Click the heading of a topic to see the lecture slides or lab instructions. Slides are added as the course progresses.
Room: BMC I1341 and/or BMC H1023 computer room
Monday 23rd of October
10.00-10.15 Registration and Welcome, presentation of SciLifeLab (Christine Karlsson, Markus Ringnér)
10.15-11.00 Lecture: Introduction to Linux (Valentin Georgiev)
11.00-12.00 Exercise: Introduction to Linux (Valentin Georgiev, Markus Ringnér)
12.00-13.00 Lunch
13.00-14.00 Lecture: Introduction to UPPMAX/UPPNEX (Valentin Georgiev)
14.00-17.00 Exercise: Introduction to UPPMAX/UPPNEX (Valentin Georgiev, Nikolay Oskolkov)
Tuesday 24th
09.00-09.30 Lecture: File types in bioinformatics (Valentin Georgiev)
09.30-12.00 Exercise: File types in bioinformatics (Valentin Georgiev, Fredrik Levander)
12.00-13.00 Lunch
13:00-14:00 Lecture: Advanced Linux usage (Valentin Georgiev)
14:00-17:00 Exercise: Advanced Linux usage (Valentin Georgiev, Fredrik Levander)
Wednesday 25th
09:00-10.00 Lecture: NGS workflow (Nikolay Oskolkov)
10:00-12.00 Exercise: NGS workflow part I (Nikolay Oskolkov, Markus Ringnér)
12.00-13.00 Lunch
13.00-17:00 Exercise: NGS workflow part II (Nikolay Oskolkov, Markus Ringnér)
Thursday 26th
09.00-11.00 Core Facility Lecture Lund part I (Stefan Lang)
11:00-12.00 Core Facility Lecture Lund part II (Stefan Lang)
12.00-13.00 Lunch
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, Markus Ringnér)
Friday 27th
09:00-12:00 Exercise: RNA sequencing, transcriptome and expression quantification part II (Dag Ahrén, Markus Ringnér)
12.00-13.00 Lunch
13:00-13.20 Lecture: The Bioinformatics Infrastructure in Sweden (Niclas Jareborg)
13:20-14:20 Lecture: Data management (Niclas Jareborg)
14:20-16.00 Open discussions (Dag Ahrén, Markus Ringnér, Shamit Soneji, Stefan Lang, Per Ludvik Brattås)