name: hmmcopy_gccounter
description: gcCounter function from HMMcopy utilities, used to generate GC content in non-overlapping windows from a fasta reference
keywords:
  - hmmcopy
  - gccounter
  - cnv
tools:
  - hmmcopy:
      description: C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy
      homepage: https://github.com/shahcompbio/hmmcopy_utils
      documentation: https://github.com/shahcompbio/hmmcopy_utils
      tool_dev_url: https://github.com/shahcompbio/hmmcopy_utils
      doi: ""
      licence: ["GPL v3"]

input:
  - fasta:
      type: file
      description: Input genome fasta file

output:
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - wig:
      type: file
      description: wig file containing gc content of each window of the genome
      pattern: "*.{gc.wig}"

authors:
  - "@sppearce"