nf-core_modules/modules/cellranger/mkref/meta.yml

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name: cellranger_mkref
description: Module to build the reference needed by the 10x Genomics Cell Ranger tool. Uses the cellranger mkref command.
keywords:
- reference
- mkref
- index
tools:
- cellranger:
description: Cell Ranger by 10x Genomics is a set of analysis pipelines that process Chromium single-cell data to align reads, generate feature-barcode matrices, perform clustering and other secondary analysis, and more.
homepage: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger
documentation: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/using/tutorial_ov
tool_dev_url: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/using/tutorial_ov
doi: ""
licence: 10x Genomics EULA
input:
- fasta:
type: file
description: fasta genome file
pattern: "*.{fasta,fa}"
- gtf:
type: file
description: gtf transcriptome file
pattern: "*.gtf"
- reference_name:
type: val
description: name to give the reference folder
pattern: str
output:
- reference:
type: folder
description: Folder containing all the reference indices needed by Cell Ranger
- versions:
type: file
description: File containing software version
pattern: "versions.yml"
authors:
- "@ggabernet"