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8e5eaf1fa4
* update plink2/vcf to output zstandard compressed data automatically * update meta * set plink CPU and memory usage Co-authored-by: Sateesh <33637490+sateeshperi@users.noreply.github.com>
52 lines
1.3 KiB
YAML
52 lines
1.3 KiB
YAML
name: plink2_vcf
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description: Import variant genetic data using plink2
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keywords:
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- plink2
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- import
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tools:
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- plink2:
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description: |
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Whole genome association analysis toolset, designed to perform a range
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of basic, large-scale analyses in a computationally efficient manner
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homepage: http://www.cog-genomics.org/plink/2.0/
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documentation: http://www.cog-genomics.org/plink/2.0/general_usage
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tool_dev_url: None
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doi: ""
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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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- vcf:
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type: file
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description: Variant calling file (vcf)
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pattern: "*.{vcf}, *.{vcf.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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- pgen:
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type: file
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description: PLINK 2 binary genotype table
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pattern: "*.{pgen}"
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- psam:
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type: file
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description: PLINK 2 sample information file
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pattern: "*.{psam}"
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- pvar:
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type: file
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description: PLINK 2 variant information file
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pattern: "*.{pvar.zst}"
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authors:
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- "@nebfield"
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