Description

Module to run UniverSC an open-source pipeline to demultiplex and process single-cell RNA-Seq data

Input

name:type
description
pattern

meta

:map

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

reads

:file

FASTQ or FASTQ.GZ file, list of 2 files for paired-end data

*.{fastq,fq,fastq.gz,fq.gz}

meta2

:map

Groovy Map containing reference information e.g. [ id:‘Hg38’ ]

reference

:file

Reference genome file

technology

:string

Technology to pass to universc --technology argument

Output

name:type
description
pattern

outs

meta

:map

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

${prefix}/outs/*

:file

Files containing the outputs of Cell Ranger

${prefix}/outs/*

versions

versions.yml

:file

File containing software version

versions.yml

Tools

maintainers
Github user kbattenb
Github user tomkellygenetics
get in touch
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