nf-core_modules/modules/rseqc/junctionannotation/meta.yml
Matthias Hörtenhuber e745e167c1
Fix formatting in yaml files, add yamllint config (#1279)
* fix yml formatting

* allow fastq.gz and fq.gz as file input, add meta.yml and test

* fix yaml files

* Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test"

This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4.

* prettier magic!

* fix comments for yamllint

* remove node version number

* fix linting errors

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00

62 lines
1.6 KiB
YAML

name: rseqc_junctionannotation
description: compare detected splice junctions to reference gene model
keywords:
- junctions
- splicing
- rnaseq
tools:
- rseqc:
description: |
RSeQC package provides a number of useful modules that can comprehensively evaluate
high throughput sequence data especially RNA-seq data.
homepage: http://rseqc.sourceforge.net/
documentation: http://rseqc.sourceforge.net/
doi: 10.1093/bioinformatics/bts356
licence: ["GPL-3.0-or-later"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: the alignment in bam format
pattern: "*.{bam}"
- bed:
type: file
description: a bed file for the reference gene model
pattern: "*.{bed}"
output:
- bed:
type: file
description: bed file of annotated junctions
pattern: "*.junction.bed"
- interact_bed:
type: file
description: Interact bed file
pattern: "*.Interact.bed"
- xls:
type: file
description: xls file with junction information
pattern: "*.xls"
- pdf:
type: file
description: junction plot
pattern: "*.junction.pdf"
- events_pdf:
type: file
description: events plot
pattern: "*.events.pdf"
- rscript:
type: file
description: Rscript to reproduce the plots
pattern: "*.r"
- log:
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@drpatelh"
- "@kevinmenden"