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47 lines
1.6 KiB
YAML
47 lines
1.6 KiB
YAML
name: krona_ktimporttaxonomy
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description: KronaTools Import Taxonomy imports taxonomy classifications and produces an interactive Krona plot.
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keywords:
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- plot
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- taxonomy
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- interactive
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- html
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- visualisation
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- krona chart
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tools:
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- krona:
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description: Krona Tools is a set of scripts to create Krona charts from several Bioinformatics tools as well as from text and XML files.
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homepage: https://github.com/marbl/Krona/wiki/KronaTools
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documentation: http://manpages.ubuntu.com/manpages/impish/man1/ktImportTaxonomy.1.html
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tool_dev_url:
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doi: https://doi.org/10.1186/1471-2105-12-385
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licence:
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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']
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- database:
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type: file
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description: |
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Path to the taxonomy database .tab file downloaded by krona/ktUpdateTaxonomy
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The file will be saved under a folder named "taxonomy" as "taxonomy/taxonomy.tab".
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The parent folder will be passed as argument to ktImportTaxonomy.
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- report:
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type: file
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description: "A tab-delimited file with taxonomy IDs and (optionally) query IDs, magnitudes, and scores. Query IDs are taken from column 1, taxonomy IDs from column 2, and scores from column 3. Lines beginning with # will be ignored."
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pattern: "*.{tsv}"
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output:
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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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- html:
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type: file
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description: A html file containing an interactive krona plot.
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pattern: "*.{html}"
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authors:
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- "@mjakobs"
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