modules/bbmap_bbnorm

BBNorm is designed to normalize coverage by down-sampling reads over high-depth areas of a genome, to result in a flat coverage distribution.

normalizationassemblycoverage

https://github.com/nf-core/modules/[...]/modules/nf-core/bbmap/bbnorm

Description

BBNorm is designed to normalize coverage by down-sampling reads over high-depth areas of a genome, to result in a flat coverage distribution.

Input

name:type

description

pattern

`meta:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`fastq:file`

fastq file

*.{fastq,fq}(.gz)?

Output

name:type

description

pattern

`fastq`

`meta:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`*.fastq.gz:file`

fastq file

*.{fastq, fq}.gz

`log`

`meta:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`*.log:file`

log file

*.log

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

bbmap
BBMap - Bushnell B. - sourceforge.net/projects/bbmap/

BBMap is a short read aligner, as well as various other bioinformatic tools.

jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/bbnorm-guide/

modules/bbmap_bbnorm

Description

Input

meta:map

fastq:file

Output

fastq

meta:map

*.fastq.gz:file

log

meta:map

*.log:file

versions

versions.yml:file

Tools

bbmap BBMap - Bushnell B. - sourceforge.net/projects/bbmap/

`meta:map`

`fastq:file`

`fastq`

`meta:map`

`*.fastq.gz:file`

`log`

`meta:map`

`*.log:file`

`versions`

`versions.yml:file`

bbmap
BBMap - Bushnell B. - sourceforge.net/projects/bbmap/