Description

Collapses identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts)

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

fastx:file

Decompressed FASTA/FASTQ input file

*.{fastq,fasta}

Output

name:type
description
pattern

fasta

meta:map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

${prefix}.fasta:file

Collapsed FASTA file

*.fasta

versions

versions.yml:file

File containing software versions

versions.yml

Tools

fastx
AGPL

A collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing