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:directory
A Kraken2 database directory with required bracken files inside
*/
bracken_files
meta:map
Groovy Map containing sample information
e.g. [ id:'sample1', single_end:false ]
${kraken2db}/database*: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.
