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d5f6985607
* add new nucmer module * Apply suggestions from code review Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com> * update tests with file produced by input * Update main.nf * Update meta.yml Co-authored-by: Michael Cipriano <mcipriano@gmail.com> Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
50 lines
1.4 KiB
YAML
50 lines
1.4 KiB
YAML
name: nucmer
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description: NUCmer is a pipeline for the alignment of multiple closely related nucleotide sequences.
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keywords:
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- align
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- nucleotide
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tools:
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- nucmer:
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description: NUCmer is a pipeline for the alignment of multiple closely related nucleotide sequences.
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homepage: http://mummer.sourceforge.net/
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documentation: http://mummer.sourceforge.net/
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tool_dev_url: http://mummer.sourceforge.net/
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doi: "https://doi.org/10.1186/gb-2004-5-2-r12"
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licence: ['The Artistic License']
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- ref:
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type: file
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description: FASTA file of the reference sequence
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pattern: "*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz}"
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- query:
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type: file
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description: FASTA file of the query sequence
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pattern: "*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz}"
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- delta:
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type: file
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description: File containing coordinates of matches between reference and query
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- coords:
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type: file
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description: NUCmer1.1 coords output file
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pattern: "*.{coords}"
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authors:
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- "@sateeshperi"
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- "@mjcipriano"
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