Genomic epidemiology Flashcards
1
Q
What is identification and typing?
A
Identification: Finding (sub)species
Typing: Determing anything below (sub)species, e.g. serovar, phagetype, MLST, WGS…
2
Q
16s rRNA problems
A
Only small part of genome, may not be detailed enough
3
Q
What can epidemiology use phylogeny for?
A
Outbreak detection
4
Q
What does pruning of SNPs mean?
A
To remove clustered SNPs since they might be linked
5
Q
What is VCF?
A
Variant calling format, where you can see SNPs at different positions
