8:30-9:00: Breakfast
9:00-9:15: Welcome back and intro
Slides: PDF
Multiple choice questions for recap of yesterday's topics PDF
9:15-9:45: VTEC diagnostics
Readings: Joensen et al 2014 (VirulenceFinder and NDtree paper) PDF
Readings: Joensen et al 2015 (SerotypeFinder paper) PDF
Slides: PDF
9:45-10:00: Coffee
10:00-11:15: Computer work w. VTEC (VirulenceFinder, SerotypeFinder, MyDBFinder)
11:15-12:00: Intro to the SNP/ND concept (Johanne Ahrenfeldt)
Slides: PDF
12:00-13:00: Lunch
13:00-13:45: Computer work - phylogeny (NDtree and CSIPhylogeny)
13:45-14:45: Preparations of participant presentations
You may stay in this room or go to group rooms 7 or 8.
14:45:15:00: Coffee
15:00-16:30: Participant presentations and discussions
16:30-17:00: Alternative tools for typing and phylogeny
Readings: Zhang et al 2015 (SeqSero paper) PDF
Readings: Bartels et al 2014 (SpaTyper paper) PDF
Readings: Thrane et al 2016 (PAst paper) PDF
Slides: PDF
18:30: Workshop dinner INFO