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{:bash}

:map

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

fastq{:bash}

:file

fastq file

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

Output

name:type
description
pattern

fastq{:bash}

meta{:bash}

:map

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

*.fastq.gz{:bash}

:file

fastq file

*.{fastq, fq}.gz

log{:bash}

meta{:bash}

:map

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

*.log{:bash}

:file

log file

*.log

versions_bbmap{:bash}

${task.process}{:bash}

:string

The name of the process

bbmap{:bash}

:string

The name of the tool

bbversion.sh | grep -v "Duplicate cpuset"{:bash}

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

bbmap{:bash}

:string

The name of the tool

bbversion.sh | grep -v "Duplicate cpuset"{:bash}

:eval

The expression to obtain the version of the tool

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/
included in
magmetatdenovo
maintainer
Github user danilodileo
get in touch
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