name: cnvpytor_partition
description: partitioning read depth histograms
keywords:
  - cnv calling
  - partition histograms
tools:
  - cnvpytor:
      description: calling CNVs using read depth
      homepage: https://github.com/abyzovlab/CNVpytor
      documentation: https://github.com/abyzovlab/CNVpytor
      tool_dev_url: https://github.com/abyzovlab/CNVpytor
      doi: "10.1101/2021.01.27.428472v1"
      licence: ["MIT"]

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test' ]
  - pytor:
      type: file
      description: pytor file containing read depth data
      pattern: "*.{pytor}"
  - bin_sizes:
      type: string
      description: list of binsizes separated by space e.g. "1000 10000" and "1000"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test' ]
  - partitions:
      type: file
      description: pytor file containing partitions of read depth histograms using mean-shift method
      pattern: "*.{pytor}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"

authors:
  - "@sima-r"
  - "@ramprasadn"