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 (map)

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

]

fastq (file)

FASTQ file from AdapterRemoval2

*.{fq.gz,fastq.gz}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

fixed_fastq (file)

FASTQ file with fixed read prefixes for DeDup

*.{fq.gz}
author
Github user jfy133
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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