2021-10-07 12:55:06 +00:00
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name: gatk4_learnreadorientationmodel
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description: |
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Uses f1r2 counts collected during mutect2 to Learn the prior probability of read orientation artifacts
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keywords:
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- gatk4
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- learnreadorientationmodel
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- readorientationartifacts
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- mutect2
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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/categories/360002369672s
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doi: 10.1158/1538-7445.AM2017-3590
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2022-02-15 11:15:27 +00:00
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licence: ["Apache-2.0"]
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2021-10-07 12:55:06 +00:00
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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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- f1r2:
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type: list
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description: list of f1r2 files to be used as input.
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pattern: "*.f1r2.tar.gz"
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output:
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- artifactprior:
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type: file
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description: file containing artifact-priors to be used by filtermutectcalls
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pattern: "*.tar.gz"
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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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- "@GCJMackenzie"
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