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e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
42 lines
1.4 KiB
YAML
42 lines
1.4 KiB
YAML
name: nextclade_datasetget
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description: Get dataset for SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks (C++ implementation)
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keywords:
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- nextclade
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- variant
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- consensus
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tools:
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- nextclade:
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description: SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks
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homepage: https://github.com/nextstrain/nextclade
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documentation: https://github.com/nextstrain/nextclade
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tool_dev_url: https://github.com/nextstrain/nextclade
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doi: ""
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licence: ["MIT"]
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input:
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- dataset:
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type: string
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description: Name of dataset to retrieve. A list of available datasets can be obtained using the nextclade dataset list command.
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pattern: ".+"
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- reference:
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type: string
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description: Accession id to download dataset based on a particular reference sequence. A list of available datasets can be obtained using the nextclade dataset list command.
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pattern: ".+"
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- tag:
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type: string
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description: Version tag of the dataset to download. A list of available datasets can be obtained using the nextclade dataset list command.
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pattern: ".+"
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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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- prefix:
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type: path
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description: A directory containing the dataset files needed for nextclade run
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pattern: "prefix"
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authors:
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- "@antunderwood"
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- "@drpatelh"
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