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55 lines
1.4 KiB
YAML
55 lines
1.4 KiB
YAML
name: tiddit_sv
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description: Identify chromosomal rearrangements.
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keywords:
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- structural
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- variants
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- vcf
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tools:
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- sv:
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description: Search for structural variants.
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homepage: https://github.com/SciLifeLab/TIDDIT
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documentation: https://github.com/SciLifeLab/TIDDIT/blob/master/README.md
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doi: 10.12688/f1000research.11168.1
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licence: ["GPL-3.0-or-later"]
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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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- input:
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type: file
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description: BAM/CRAM file
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pattern: "*.{bam,cram}"
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- index:
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type: file
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description: BAM/CRAM index file
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pattern: "*.{bai,crai}"
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- fasta:
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type: file
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description: Input FASTA file
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pattern: "*.{fasta,fa}"
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- bwa_index:
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type: file
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description: BWA genome index files
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pattern: "Directory containing BWA index *.{amb,ann,bwt,pac,sa}"
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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: vcf
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pattern: "*.{vcf}"
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- ploidy:
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type: file
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description: tab
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pattern: "*.{ploidies.tab}"
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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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- "@maxulysse"
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