Description

Demultiplex paired-end FASTQ files from QuantSeq-Pool

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘NVQ’, lane:1 ]

reads:file

List of input FastQ files

Undetermined_S*.fastq.gz

samplesheet:file

Input samplesheet

*.{csv}

Output

name:type
description
pattern

fastq

meta:file

Demultiplexed sample FASTQ files

*.fastq.gz

[!undetermined]*.fastq.gz:file

Demultiplexed sample FASTQ files

*.fastq.gz

undetermined

meta:file

Optional undetermined sample FASTQ files

Undetermined_R?.fastq.gz

undetermined_R?.fastq.gz:file

Optional undetermined sample FASTQ files

Undetermined_R?.fastq.gz

stats

demultipexing_stats.tsv:file

Demultiplexing Stats

demultipexing_stats.tsv

versions

versions.yml:file

File containing software versions

versions.yml

Tools

idemux
LEXOGEN

A Lexogen tool for demultiplexing and index error correcting fastq files. Works with Lexogen i7, i5 and i1 barcodes.