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48 lines
1.2 KiB
YAML
48 lines
1.2 KiB
YAML
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name: pirate
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description: Pangenome toolbox for bacterial genomes
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keywords:
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- gff
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- pan-genome
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- alignment
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tools:
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- pirate:
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description: Pangenome analysis and threshold evaluation toolbox
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homepage: https://github.com/SionBayliss/PIRATE
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documentation: https://github.com/SionBayliss/PIRATE/wiki
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tool_dev_url: https://github.com/SionBayliss/PIRATE
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doi: "https://doi.org/10.1093/gigascience/giz119"
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licence: ['GPL v3']
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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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- gff:
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type: file
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description: A set of GFF3 formatted files
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pattern: "*.{gff}"
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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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- results:
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type: directory
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description: Directory containing PIRATE result files
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pattern: "*/*"
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- aln:
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type: file
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description: Core-genome alignment produced by PIRATE (Optional)
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pattern: "*.{fasta}"
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authors:
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- "@rpetit3"
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