Description

Module that calls normalize-by-median.py from khmer. The module can take a mix of paired end (interleaved) and single end reads. If both types are provided, only a single file with single ends is possible.

Input

name:type
description
pattern

meta:map

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

fastq_paired:file

Paired-end interleaved fastq files

*.{fq,fastq}.gz

fastq_unpaired:file

Single-end fastq files

*.{fq,fastq}.gz

Output

name:type
description
pattern

reads

meta:map

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

*.fastq.gz:file

Interleaved fastq files

*.{fq,fastq}.gz

versions

versions.yml:file

File containing software versions

versions.yml

Tools

Github user erikrikarddaniel
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