nf-core_modules/software/quast/meta.yml

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name: quast
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description: Quality Assessment Tool for Genome Assemblies
keywords:
- quast
- assembly
- quality
tools:
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- quast:
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description: |
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QUAST calculates quality metrics for genome assemblies
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homepage: http://bioinf.spbau.ru/quast
doi:
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:
- consensus:
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type: file
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description: |
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Fasta file containing the assembly of interest
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- fasta:
type: file
description: |
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The genome assembly to be evaluated. Has to contain at least a non-empty string dummy value.
- use_fasta:
type: boolean
description: Whether to use the provided fasta reference genome file
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- gff:
type: file
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description: The genome GFF file. Has to contain at least a non-empty string dummy value.
- use_gff:
type: boolean
description: Whether to use the provided gff reference annotation file
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output:
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- quast:
type: directory
description: Directory containing complete quast report
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pattern: "{prefix}.lineage_report.csv"
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- report:
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- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
- "@drpatelh"
- "@kevinmenden"