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54 lines
1.3 KiB
YAML
54 lines
1.3 KiB
YAML
name: bwa_aln
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description: Find SA coordinates of the input reads for bwa short-read mapping
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keywords:
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- bwa
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- aln
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- short-read
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- align
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- reference
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- fasta
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- map
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- fastq
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tools:
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- bwa:
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description: |
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BWA is a software package for mapping DNA sequences against
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a large reference genome, such as the human genome.
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homepage: http://bio-bwa.sourceforge.net/
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documentation: http://bio-bwa.sourceforge.net/
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doi: "10.1093/bioinformatics/btp324"
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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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- reads:
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type: file
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description: |
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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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- 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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- 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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- sai:
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type: file
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description: Single or paired SA coordinate files
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pattern: "*.sai"
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authors:
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- "@jfy133"
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