Source: https://github.com/gmtsciencedev/bioit-dockers
A simple kraken2 + bracken docker.
The database is not included in the image you must download it manually:
GTDB r207 : http://ftp.tue.mpg.de/ebio/projects/struo2/GTDB_release207/kraken2/
Put the content in /resource dir in example below
A typical use for kraken2:
docker run -it -v /resource:/resource -v /output:/output -v /input:/input \
gmtscience/kraken2bracken
sh -c "kraken2 --use-names --threads ${CPU} --db /resource/ --report /output/${name}.report \
/input/${name}.fa > /output/${name}.kraken"
Content type
Image
Digest
sha256:57ace94fe…
Size
208.8 MB
Last updated
almost 4 years ago
docker pull gmtscience/kraken2bracken