nf-core_modules/modules/trimgalore/meta.yml

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name: trimgalore
description: Trim FastQ files using Trim Galore!
keywords:
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- trimming
- adapters
- sequencing adapters
- fastq
tools:
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- trimgalore:
description: |
A wrapper tool around Cutadapt and FastQC to consistently apply quality
and adapter trimming to FastQ files, with some extra functionality for
MspI-digested RRBS-type (Reduced Representation Bisufite-Seq) libraries.
homepage: https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/
documentation: https://github.com/FelixKrueger/TrimGalore/blob/master/Docs/Trim_Galore_User_Guide.md
input:
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- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: |
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
respectively.
output:
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- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: |
List of input adapter trimmed FastQ files of size 1 and 2 for
single-end and paired-end data, respectively.
pattern: "*.{fq.gz}"
- html:
type: file
description: FastQC report (optional)
pattern: "*_{fastqc.html}"
- zip:
type: file
description: FastQC report archive (optional)
pattern: "*_{fastqc.zip}"
- log:
type: file
description: Trim Galore! trimming report
pattern: "*_{report.txt}"
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
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- "@drpatelh"
- "@ewels"
- "@FelixKrueger"