Description

mirtop export generates files such as fasta, vcf or compatible with isomiRs bioconductor package

Input

name:type
description
pattern

meta:map

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

mirtop_gff:file

GFF file

*.{gff}

meta2:map

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

hairpin:file

Hairpin file

*.{fa,fasta}

meta3:map

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

gtf:file

GTF file

*.{gtf}

species:string

Species name of the GTF file

Output

name:type
description
pattern

tsv

meta:map

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

export/*_rawData.tsv:file

TSV file

*.{tsv}

fasta

meta:map

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

export/*.fasta:file

FASTA file

*.{fasta,fa}

vcf

meta:map

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

export/*.vcf*:file

VCF file

*.{vcf,vcf.gz}

versions

versions.yml: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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