nf-core_modules/modules/mobsuite/recon/meta.yml

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name: mobsuite_recon
description: A tool to reconstruct plasmids in bacterial assemblies
keywords:
- bacteria
- plasmid
tools:
- mobsuite:
description: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies.
homepage: https://github.com/phac-nml/mob-suite
documentation: https://github.com/phac-nml/mob-suite
tool_dev_url: https://github.com/phac-nml/mob-suite
doi: "10.1099/mgen.0.000435"
licence: ['Apache License, Version 2.0']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- fasta:
type: file
description: A bacterial genome assembly in FASTA format
pattern: "*.{fasta,fa,fna}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- chromosome:
type: file
description: FASTA file of all contigs found to belong to the chromosome
pattern: "chromosome.fasta"
- contig_report:
type: file
description: Assignment of the contig to chromosome or a particular plasmid grouping
pattern: "contig_report.txt"
- plasmids:
type: file
description: Each plasmid group is written to an individual FASTA
pattern: "plasmid_*.fasta"
- mobtyper_results:
type: file
description: Aggregate MOB-typer report files for all identified plasmid
pattern: "mobtyper_results.txt"
authors:
- "@rpetit3"