modules/smoothxg

Linearize and simplify variation graph in GFA format using blocked partial order alignment

gfagraphpangenomevariation graphPOA

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

Description

Linearize and simplify variation graph in GFA format using blocked partial order alignment

Input

name:type

description

pattern

`meta:map`

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

`gfa:file`

Variation graph in GFA 1.0 format

*.{gfa}

Output

name:type

description

pattern

`gfa`

`meta:map`

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

`*smoothxg.gfa:file`

Linearized and simplified graph in GFA 1.0 format

*.smoothxg.{gfa}

`maf`

`*.maf:file`

write the multiple sequence alignments (MSAs) in MAF format in this file (optional)

*.{maf}

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

smoothxg
MIT

smoothxg linearizes and simplifies variation graphs using blocked partial order alignment.

github.com/pangenome/smoothxg

modules/smoothxg

Description

Input

meta:map

gfa:file

Output

gfa

meta:map

*smoothxg.gfa:file

maf

*.maf:file

versions

versions.yml:file

Tools

smoothxg MIT

`meta:map`

`gfa:file`

`gfa`

`meta:map`

`*smoothxg.gfa:file`

`maf`

`*.maf:file`

`versions`

`versions.yml:file`

smoothxg
MIT