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aa76c6d870
* add adapterremoval module * fix indentations * switch to process_medium * update docker tests * remove duplicated entry * fix line ending * Update software/adapterremoval/main.nf * Update software/adapterremoval/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
50 lines
1.4 KiB
YAML
50 lines
1.4 KiB
YAML
name: adapterremoval
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description: Trim sequencing adapters and collapse overlapping reads
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keywords:
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- trimming
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- adapters
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- merging
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- fastq
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tools:
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- adapterremoval:
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description: The AdapterRemoval v2 tool for merging and clipping reads.
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homepage: https://github.com/MikkelSchubert/adapterremoval
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documentation: https://adapterremoval.readthedocs.io
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licence: ['GPL 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, collapse: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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pattern: "*.{fq,fastq,fg.gz,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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- reads:
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type: file
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description: |
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List of input adapter trimmed FastQ files of size 1 or 2 for
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single-end or collapsed data and paired-end data, respectively.
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pattern: "*.{fastq.gz}"
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- log:
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type: file
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description: AdapterRemoval log file
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pattern: "*.log"
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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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authors:
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- "@maxibor"
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