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45 lines
1.1 KiB
YAML
45 lines
1.1 KiB
YAML
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name: "elprep_merge"
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description: Merge split bam/sam chunks in one file
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keywords:
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- bam
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- sam
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- merge
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tools:
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- "elprep":
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description: "elPrep is a high-performance tool for preparing .sam/.bam files for variant calling in sequencing pipelines. It can be used as a drop-in replacement for SAMtools/Picard/GATK4."
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homepage: "None"
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documentation: "None"
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tool_dev_url: "None"
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doi: ""
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licence: "['AGPL 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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- bam:
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type: file
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description: List of BAM/SAM chunks to merge
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pattern: "*.{bam,sam}"
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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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#
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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: Merged BAM/SAM file
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pattern: "*.{bam,sam}"
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authors:
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- "@matthdsm"
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