Description

mirtop counts generates a file with the minimal information about each sequence and the count data in columns for each samples.

Input

name:type
description
pattern

meta{:bash}

:map

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

mirtop_gff{:bash}

:file

GFF file

*.{gff}

meta2{:bash}

:map

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

hairpin{:bash}

:file

Hairpin file

*.{fa,fasta}

meta3{:bash}

:map

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

gtf{:bash}

:file

GTF file

*.{gtf}

species{:bash}

:string

Species name of the GTF file

Output

name:type
description
pattern

tsv{:bash}

meta{:bash}

:map

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

counts/*.tsv{:bash}

:file

TSV file

*.{tsv}

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

included in
smrnaseq
maintainers
Github user atrigila
Github user lpantano
get in touch
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