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d5183a7fec
* add cellranger mkref module * add cellranger mkref tests * update test yml chksum * fix module linting * fix test yml * fix getprocessname * fix versions typo * fix cellranger test.yml * fix versions.yml * test versions.yml * fix grep version * fix cellranger version * add dockerfile and readme * review container statement * Update modules/cellranger/mkref/meta.yml Co-authored-by: Gregor Sturm <mail@gregor-sturm.de> * add disclaimers * change location dockerfile Co-authored-by: Gregor Sturm <mail@gregor-sturm.de>
39 lines
1.4 KiB
YAML
39 lines
1.4 KiB
YAML
name: cellranger_mkref
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description: Module to build the reference needed by the 10x Genomics Cell Ranger tool. Uses the cellranger mkref command.
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keywords:
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- reference
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- mkref
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- index
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tools:
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- cellranger:
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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.
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homepage: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger
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documentation: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/using/tutorial_ov
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tool_dev_url: https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/using/tutorial_ov
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doi: ""
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licence: 10x Genomics EULA
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input:
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- fasta:
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type: file
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description: fasta genome file
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pattern: "*.{fasta,fa}"
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- gtf:
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type: file
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description: gtf transcriptome file
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pattern: "*.gtf"
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- reference_name:
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type: val
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description: name to give the reference folder
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pattern: str
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output:
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- versions:
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type: file
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description: File containing software version
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pattern: "versions.yml"
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- reference:
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type: folder
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description: Folder containing all the reference indices needed by Cell Ranger
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authors:
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- "@ggabernet"
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