Description

Fixes prefixes from AdapterRemoval2 output to make sure no clashing read names are in the output. For use with DeDup.

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 from AdapterRemoval2

*.{fq.gz,fastq.gz}

Output

name:type
description
pattern

fixed_fastq{:bash}

meta{:bash}

:map

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

*.fq.gz{:bash}

:file

FASTQ file with fixed read prefixes for DeDup

*.{fq.gz}

versions_adapterremovalfixprefix{:bash}

${task.process}{:bash}

:string

The name of the process

adapterremovalfixprefix{:bash}

:string

The name of the tool

echo 0.0.5{: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

adapterremovalfixprefix{:bash}

:string

The name of the tool

echo 0.0.5{:bash}

:eval

The expression to obtain the version of the tool

Tools

adapterremovalfixprefix
GPL v3

Fixes adapter removal prefixes to make sure no clashing read names are in the output.

github.com/apeltzer/AdapterRemovalFixPrefix https://github.com/apeltzer/AdapterRemovalFixPrefix 10.1186/s13059-016-0918-z
maintainer
Github user jfy133
get in touch
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