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3aacd46da2
* backfilled modules with meta.yml that had no license identifier * harmonized BSD license names * whitespace linting at modules/unzip/meta.yml:12 * harmonized software from US NIH-NCBI/NIST to 'US-Government-Work' * Update modules/bcftools/index/meta.yml `bcftools` is dual-licensed, use associative array to allow for multiple licenses Co-authored-by: Michael L Heuer <heuermh@acm.org> Co-authored-by: Michael L Heuer <heuermh@acm.org>
47 lines
1.4 KiB
YAML
47 lines
1.4 KiB
YAML
name: gatk4_fastqtosam
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description: Converts FastQ file to SAM/BAM format
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keywords:
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- bam
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- fastq
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- convert
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tools:
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- gatk4:
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description: Genome Analysis Toolkit (GATK4)
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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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tool_dev_url: https://github.com/broadinstitute/gatk
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doi: "10.1158/1538-7445.AM2017-3590"
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licence: ['MIT']
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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: List of input FastQ files of size 1 and 2 for single-end and paired-end data,
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respectively.
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pattern: "*.fastq.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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- bam:
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type: file
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description: Converted BAM file
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pattern: "*.bam"
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authors:
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- "@ntoda03"
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