Description

Extends a Kraken2 database to be compatible with Bracken

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

kraken2db:directory

A Kraken2 database directory

*/

Output

name:type
description
pattern

db

meta:map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

kraken2db , includeInputs: true:directory

A Kraken2 database directory with required bracken files in side

*/

bracken_files

meta:map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

${kraken2db}/database*", includeInputs: true:directory

Bracken files required to extend the Kraken2 database

versions

versions.yml:file

File containing software versions

versions.yml

Tools

bracken
GPL v3

Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

ccb.jhu.edu/software/bracken https://github.com/jenniferlu717/Bracken/ 10.7717/peerj-cs.104
included in
createtaxdb
maintainer
Github user jfy133
get in touch
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