modules/universc

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

demultiplexalignsingle-cellscRNA-Seqcountumi

https://github.com/nf-core/modules/[...]/modules/nf-core/universc

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}

`reference:file`

Reference genome file

Output

name:type

description

pattern

`outs`

`meta:file`

Files containing the outputs of Cell Ranger

sample-${meta.id}/outs/*

`sample-${meta.id}/outs/*:file`

Files containing the outputs of Cell Ranger

sample-${meta.id}/outs/*

`versions`

`versions.yml:file`

File containing software version

versions.yml

Tools

universc
GPL-3.0-or-later

UniverSC: a flexible cross-platform single-cell data processing pipeline

hub.docker.com/r/tomkellygenetics/universc raw.githubusercontent.com/minoda-lab/universc/master/man/launch_universc.sh https://github.com/minoda-lab/universc 10.1101/2021.01.19.427209

modules/universc

Description

Input

`meta:map`

`reads:file`

`reference:file`

Output

`outs`

`meta:file`

`sample-${meta.id}/outs/*:file`

`versions`

`versions.yml:file`

Tools

universc
GPL-3.0-or-later

maintainers

get in touch

modules/universc

Description

Input

meta:map

reads:file

reference:file

Output

outs

meta:file

sample-${meta.id}/outs/*:file

versions

versions.yml:file

Tools

universc GPL-3.0-or-later

maintainers

get in touch

`meta:map`

`reads:file`

`reference:file`

`outs`

`meta:file`

`sample-${meta.id}/outs/*:file`

`versions`

`versions.yml:file`

universc
GPL-3.0-or-later