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46 lines
1.3 KiB
YAML
46 lines
1.3 KiB
YAML
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name: cutadapt
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description: Perform adapter/quality trimming on sequencing reads
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keywords:
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- trimming
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- adapter trimming
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- adapters
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- quality trimming
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tools:
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- cuatadapt:
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description: |
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Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads.
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documentation: https://cutadapt.readthedocs.io/en/stable/index.html
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doi: DOI:10.14806/ej.17.1.200
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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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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: The trimmed/modified fastq reads
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pattern: "*fastq.gz"
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- log:
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type: file
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description: cuatadapt log file
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pattern: "*cutadapt.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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- "@drpatelh"
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- "@kevinmenden"
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