nf-core_modules/modules/bbmap/bbsplit/meta.yml

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name: bbmap_bbsplit
description: write your description here
keywords:
- align
- map
- genome
- reference
tools:
- bbmap:
description: BBMap is a short read aligner, as well as various other bioinformatic tools.
homepage: https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/
documentation: https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/
tool_dev_url: None
doi: ""
licence: ['UC-LBL license (see package)']
input:
- 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.
- index:
type: directory
description: Directory to place generated index
pattern: "*"
- primary_ref:
type: path
description: Path to the primary reference
pattern: "*"
- other_ref_names:
type: list
description: List of other reference ids apart from the primary
- other_ref_paths:
type: list
description: Path to other references paths corresponding to "other_ref_names"
- only_build_index:
type: string
description: true = only build index; false = mapping
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- index:
type: directory
description: Directory with index files
pattern: "bbsplit"
- primary_fastq:
type: file
description: Output reads that map to the primary reference
pattern: "*primary*fastq.gz"
- all_fastq:
type: file
description: All reads mapping to any of the references
pattern: "*fastq.gz"
- stats:
type: file
description: Tab-delimited text file containing mapping statistics
pattern: "*.txt"
authors:
- "@joseespinosa"
- "@drpatelh"