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56 lines
1.5 KiB
YAML
56 lines
1.5 KiB
YAML
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name: gatk4_selectvariants
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description: Select a subset of variants from a VCF file
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keywords:
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- gatk
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- gatk4
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- selectvariants
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- vcf
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tools:
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- gatk4:
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description: |
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Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools
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with a primary focus on variant discovery and genotyping. Its powerful processing engine
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and high-performance computing features make it capable of taking on projects of any size.
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homepage: https://gatk.broadinstitute.org/hc/en-us
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documentation: https://gatk.broadinstitute.org/hc/en-us/articles/360036362532-SelectVariants
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tool_dev_url: https://github.com/broadinstitute/gatk
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doi: 10.1158/1538-7445.AM2017-3590
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licence: ["Apache-2.0"]
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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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- vcf:
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type: list
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description: VCF(.gz) file
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pattern: "*.{vcf,vcf.gz}"
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- vcf_idx:
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type: list
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description: VCF file index
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pattern: "*.{idx,tbi}"
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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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- vcf:
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type: file
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description: Compressed VCF file
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pattern: "*.selectvariants.vcf.gz"
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- vcf_tbi:
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type: list
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description: VCF file index
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pattern: "*.{idx,tbi}"
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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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authors:
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- "@mjcipriano"
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