name: "merquryfk_ploidyplot"
description: An improved version of Smudgeplot using FastK
keywords:
  - kmer
  - smudgeplot
  - ploidy
tools:
  - "merquryfk":
      description: "FastK based version of Merqury"
      homepage: "https://github.com/thegenemyers/MERQURY.FK"
      documentation: ""
      tool_dev_url: "https://github.com/thegenemyers/MERQURY.FK"
      doi: ""
      licence: "https://github.com/thegenemyers/MERQURY.FK/blob/main/LICENSE"

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - fastk_hist:
      type: file
      description: A histogram files from the program FastK
      pattern: "*.hist"
  - fastk_ktab:
      type: file
      description: ktab files from the program FastK
      pattern: "*.ktab*"

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"
  - filled_ploidy_plot_png:
      type: file
      description: A filled ploidy plot in PNG format
      pattern: "*.fi.png"
  - filled_ploidy_plot_pdf:
      type: file
      description: A filled ploidy plot in PDF format
      pattern: "*.fi.pdf"
  - line_ploidy_plot_png:
      type: file
      description: A line ploidy plot in PNG format
      pattern: "*.ln.png"
  - line_ploidy_plot_pdf:
      type: file
      description: A lin4 ploidy plot in PDF format
      pattern: "*.ln.pdf"
  - stacked_ploidy_plot_png:
      type: file
      description: A stacked ploidy plot in PNG format
      pattern: "*.st.png"
  - stacked_ploidy_plot_pdf:
      type: file
      description: A stacked ploidy plot in PDF format
      pattern: "*.st.pdf"

authors:
  - "@mahesh-panchal"