2021-02-04 18:10:54 +00:00
|
|
|
name: bandage_image
|
2021-02-04 01:31:58 +00:00
|
|
|
description: Render an assembly graph in GFA 1.0 format to PNG and SVG image formats
|
|
|
|
|
keywords:
|
|
|
|
|
- gfa
|
|
|
|
|
- graph
|
|
|
|
|
- assembly
|
|
|
|
|
- visualisation
|
|
|
|
|
tools:
|
|
|
|
|
- bandage:
|
|
|
|
|
description: |
|
|
|
|
|
Bandage - a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
|
|
|
|
|
homepage: https://github.com/rrwick/Bandage
|
|
|
|
|
documentation: https://github.com/rrwick/Bandage
|
|
|
|
|
params:
|
|
|
|
|
- outdir:
|
|
|
|
|
type: string
|
|
|
|
|
description: |
|
|
|
|
|
The pipeline's output directory. By default, the module will
|
|
|
|
|
output files into `$params.outdir/<SOFTWARE>`
|
|
|
|
|
- publish_dir_mode:
|
|
|
|
|
type: string
|
|
|
|
|
description: |
|
|
|
|
|
Value for the Nextflow `publishDir` mode parameter.
|
|
|
|
|
Available: symlink, rellink, link, copy, copyNoFollow, move.
|
|
|
|
|
- enable_conda:
|
|
|
|
|
type: boolean
|
|
|
|
|
description: |
|
|
|
|
|
Run the module with Conda using the software specified
|
|
|
|
|
via the `conda` directive
|
|
|
|
|
- singularity_pull_docker_container:
|
|
|
|
|
type: boolean
|
|
|
|
|
description: |
|
|
|
|
|
Instead of directly downloading Singularity images for use with Singularity,
|
|
|
|
|
force the workflow to pull and convert Docker containers instead.
|
|
|
|
|
input:
|
|
|
|
|
- meta:
|
|
|
|
|
type: map
|
|
|
|
|
description: |
|
|
|
|
|
Groovy Map containing sample information
|
|
|
|
|
e.g. [ id:'test', single_end:false ]
|
|
|
|
|
- gfa:
|
|
|
|
|
type: file
|
|
|
|
|
description: Assembly graph in GFA 1.0 format
|
|
|
|
|
pattern: "*.gfa"
|
|
|
|
|
output:
|
|
|
|
|
- meta:
|
|
|
|
|
type: map
|
|
|
|
|
description: |
|
|
|
|
|
Groovy Map containing sample information
|
|
|
|
|
e.g. [ id:'test', single_end:false ]
|
|
|
|
|
- png:
|
|
|
|
|
type: file
|
|
|
|
|
description: Bandage image in PNG format
|
|
|
|
|
pattern: "*.png"
|
|
|
|
|
- svg:
|
|
|
|
|
type: file
|
|
|
|
|
description: Bandage image in SVG format
|
|
|
|
|
pattern: "*.svg"
|
|
|
|
|
- version:
|
|
|
|
|
type: file
|
|
|
|
|
description: File containing software version
|
|
|
|
|
pattern: "*.{version.txt}"
|
|
|
|
|
authors:
|
|
|
|
|
- "@heuermh"
|
