name: deeptools_plotprofile
description: plots values produced by deeptools_computematrix as a profile plot
keywords:
  - plot
  - profile
  - scores
  - matrix
tools:
  - deeptools:
      description: A set of user-friendly tools for normalization and visualization of deep-sequencing data
      homepage:
      documentation: https://deeptools.readthedocs.io/en/develop/index.html
      tool_dev_url: https://github.com/deeptools/deepTools
      doi: "10.1093/nar/gku365"
      licence: ["GPL v3"]

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test' ]
  - matrix:
      type: file
      description: |
        gzipped matrix file produced by deeptools_
        computematrix deeptools utility
      pattern: "*.{mat.gz}"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - pdf:
      type: file
      description: |
        Output figure containing resulting plot
      pattern: "*.{plotProfile.pdf}"
  - matrix:
      type: file
      description: |
        File containing the matrix of values
        used to generate the profile
      pattern: "*.{plotProfile.mat.tab}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"

authors:
  - "@emiller88"
  - "@drpatelh"
  - "@joseespinosa"