modules/bandage_image

Render an assembly graph in GFA 1.0 format to PNG and SVG image formats

gfagraphassemblyvisualisation

https://github.com/nf-core/modules/[...]/modules/nf-core/bandage/image

Description

Render an assembly graph in GFA 1.0 format to PNG and SVG image formats

Input

name:type

description

pattern

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`gfa`
`:file`

Assembly graph in GFA 1.0 format

*.gfa

Output

name:type

description

pattern

`png`

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`*.png`
`:file`

Bandage image in PNG format

*.png

`svg`

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`*.svg`
`:file`

Bandage image in SVG format

*.svg

`versions_bandage`

`${task.process}`
`:string`

The name of the process

`bandage`
`:string`

The name of the tool

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

`${task.process}`
`:string`

The name of the process

`bandage`
`:string`

The name of the tool

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

The expression to obtain the version of the tool

Tools

bandage
GPL-3.0-or-later

Bandage - a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

github.com/rrwick/Bandage

modules/bandage_image

Description

Input

`meta`
`:map`

`gfa`
`:file`

Output

`png`

`meta`
`:map`

`*.png`
`:file`

`svg`

`meta`
`:map`

`*.svg`
`:file`

`versions_bandage`

`${task.process}`
`:string`

`bandage`
`:string`

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

Topics

`versions`

`${task.process}`
`:string`

`bandage`
`:string`

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

Tools

bandage
GPL-3.0-or-later

included in

maintainer

get in touch

modules/bandage_image

Description

Input

meta:map

gfa:file

Output

png

meta:map

*.png:file

svg

meta:map

*.svg:file

versions_bandage

${task.process}:string

bandage:string

export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //":eval

Topics

versions

${task.process}:string

bandage:string

export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //":eval

Tools

bandage GPL-3.0-or-later

included in

maintainer

get in touch

`meta`
`:map`

`gfa`
`:file`

`png`

`meta`
`:map`

`*.png`
`:file`

`svg`

`meta`
`:map`

`*.svg`
`:file`

`versions_bandage`

`${task.process}`
`:string`

`bandage`
`:string`

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

`versions`

`${task.process}`
`:string`

`bandage`
`:string`

`export QT_QPA_PLATFORM=offscreen; Bandage --version 2>&1| grep Version | sed "s/^Version: //"`
`:eval`

bandage
GPL-3.0-or-later