# How to detect contamination in your reads

Kraken2 pre-built databases:
https://benlangmead.github.io/aws-indexes/k2

Kraken2 tutorial:
https://genomics.sschmeier.com/ngs-taxonomic-investigation/index.html

Online tutorial for kraken2:
https://hackmd.io/@astrobiomike/kraken2-bracken-standard-build

Online tutorial for kraken1:
https://yiweiniu.github.io/blog/2018/06/Detect-Microbial-Contamination-in-Contigs-by-Kraken/

How to interpret results:
https://github.com/DerrickWood/kraken2/blob/master/docs/MANUAL.markdown