nf-core_modules/software/ivar/trim/meta.yml
2021-03-19 13:16:50 +01:00

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YAML

name: ivar_trim
description: Trim primer sequences rom a BAM file with iVar
keywords:
- amplicon sequencing
- trimming
- fasta
tools:
- ivar:
description: |
iVar - a computational package that contains functions broadly useful for viral amplicon-based sequencing.
homepage: https://github.com/andersen-lab/ivar
documentation: https://andersen-lab.github.io/ivar/html/manualpage.html
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: Co-ordinate sorted BAM file
pattern: "*.bam"
- bai:
type: file
description: Index file for co-ordinate sorted BAM file
pattern: "*.bai"
- bed:
type: file
description: BED file with primer labels and positions
pattern: "*.bed"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: iVar generated trimmed bam file (unsorted)
pattern: "*.bam"
- log:
type: file
description: Log file generated by iVar for use with MultiQC
pattern: "*.log"
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
- "@andersgs"
- "@drpatelh"