mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +00:00
796dbb573e
* Remove old nextclade module * Add nextclade/datasetget and nextclade/run modules * Fix ECLint * Add reference and tag as inputs to datasetget module * Fix tests * Adjust spacing
42 lines
1.4 KiB
YAML
42 lines
1.4 KiB
YAML
name: nextclade_datasetget
|
|
description: Get dataset for SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks (C++ implementation)
|
|
keywords:
|
|
- nextclade
|
|
- variant
|
|
- consensus
|
|
tools:
|
|
- nextclade:
|
|
description: SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks
|
|
homepage: https://github.com/nextstrain/nextclade
|
|
documentation: https://github.com/nextstrain/nextclade
|
|
tool_dev_url: https://github.com/nextstrain/nextclade
|
|
doi: ""
|
|
licence: ['MIT']
|
|
|
|
input:
|
|
- dataset:
|
|
type: string
|
|
description: Name of dataset to retrieve. A list of available datasets can be obtained using the nextclade dataset list command.
|
|
pattern: ".+"
|
|
- reference:
|
|
type: string
|
|
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.
|
|
pattern: ".+"
|
|
- tag:
|
|
type: string
|
|
description: Version tag of the dataset to download. A list of available datasets can be obtained using the nextclade dataset list command.
|
|
pattern: ".+"
|
|
|
|
output:
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- prefix:
|
|
type: path
|
|
description: A directory containing the dataset files needed for nextclade run
|
|
pattern: "prefix"
|
|
|
|
authors:
|
|
- "@antunderwood"
|
|
- "@drpatelh"
|