name: cellranger_mkgtf
description: Module to build a filtered gtf needed by the 10x Genomics Cell Ranger tool. Uses the cellranger mkgtf 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:
    - gtf:
        type: file
        description:
        pattern: "*.gtf"
output:
    - gtf:
        type: folder
        description: gtf transcriptome file
        pattern: "*.filtered.gtf"
    - versions:
        type: file
        description: File containing software version
        pattern: "versions.yml"
authors:
  - "@ggabernet"
  - "@Emiller88"
