nf-core_modules/modules/bcl2fastq/meta.yml

62 lines
1.8 KiB
YAML
Raw Normal View History

name: "bcl2fastq"
description: Demultiplex Illumina BCL files
keywords:
- demultiplex
- illumina
- fastq
tools:
- "bcl2fastq":
description: "Demultiplex Illumina BCL files"
homepage: "https://support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software"
documentation: "https://support.illumina.com/content/dam/illumina-support/documents/documentation/software_documentation/bcl2fastq/bcl2fastq2-v2-20-software-guide-15051736-03.pdf"
licence: "ILLUMINA"
input:
- meta:
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- samplesheet:
type: file
description: "Input samplesheet"
pattern: "*.{csv}"
- run_dir:
type: directory
description: "Input run directory containing RunInfo.xml and BCL data"
output:
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- fastq:
type: file
description: Demultiplexed sample FASTQ files
pattern: "**_S*_L00?_R?_00?.fastq.gz"
- fastq_idx:
type: file
description: Optional demultiplexed index FASTQ files
pattern: "**_S*_L00?_I?_00?.fastq.gz"
- undetermined:
type: file
description: Optional undetermined sample FASTQ files
pattern: "Undetermined_S0_L00?_R?_00?.fastq.gz"
- undetermined_idx:
type: file
description: Optional undetermined index FASTQ files
pattern: "Undetermined_S0_L00?_I?_00?.fastq.gz"
- reports:
type: file
description: Demultiplexing Reports
pattern: "Reports/*"
- stats:
type: file
description: Statistics files
pattern: "Stats/*"
- interop:
type: file
description: Interop files
pattern: "*.{bin}"
authors:
- "@matthdsm"