nf-core_modules/modules/umitools/extract/meta.yml

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name: umitools_extract
description: Extracts UMI barcode from a read and add it to the read name, leaving any sample barcode in place
keywords:
- umitools
- extract
tools:
- umi_tools:
description: >
UMI-tools contains tools for dealing with Unique Molecular Identifiers (UMIs)/Random Molecular Tags (RMTs)
and single cell RNA-Seq cell barcodes
documentation: https://umi-tools.readthedocs.io/en/latest/
license: ['MIT']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: list
description: |
List of input FASTQ files whose UMIs will be extracted.
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: Extracted FASTQ files. |
For single-end reads, pattern is \${prefix}.umi_extract.fastq.gz. |
For paired-end reads, pattern is \${prefix}.umi_extract_{1,2}.fastq.gz.
pattern: "*.{fastq.gz}"
- log:
type: file
description: Logfile for umi_tools
pattern: "*.{log}"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@drpatelh"
- "@grst"