Workshop day 2

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)

Exercise3

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)

Exercise4

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