nf-core_modules/modules/rseqc/readduplication/meta.yml

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name: rseqc_readduplication
description: Calculate read duplication rate
keywords:
- rnaseq
- duplication
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
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:
- seq_xls:
type: file
description: Read duplication rate determined from mapping position of read
pattern: "*seq.DupRate.xls"
- pos_xls:
type: file
description: Read duplication rate determined from sequence of read
pattern: "*pos.DupRate.xls"
- pdf:
type: file
description: plot of duplication rate
pattern: "*.pdf"
- rscript:
type: file
description: script to reproduce the plot
pattern: "*.R"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@drpatelh"
- "@kevinmenden"