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48 lines
1.2 KiB
YAML
48 lines
1.2 KiB
YAML
name: "ariba_run"
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description: Query input FASTQs against Ariba formatted databases
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keywords:
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- fastq
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- assembly
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- resistance
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- virulence
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tools:
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- "ariba":
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description: "ARIBA: Antibiotic Resistance Identification By Assembly"
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homepage: "https://sanger-pathogens.github.io/ariba/"
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documentation: "https://sanger-pathogens.github.io/ariba/"
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tool_dev_url: "https://github.com/sanger-pathogens/ariba"
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doi: "110.1099/mgen.0.000131"
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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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- reads:
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type: file
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description: Paired-end reads in FASTQ format
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pattern: "*_R[1|2].{fastq.gz,fq.gz}"
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- db:
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type: file
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description: An Ariba prepared database
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pattern: "*.tar.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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- results:
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type: file
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description: A directory of Ariba analysis outputs
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pattern: "*"
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authors:
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- "@rpetit3"
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