name: sequenzautils_gcwiggle
description: Sequenza-utils gc_wiggle computes the GC percentage across the sequences, and returns a file in the UCSC wiggle format, given a fasta file and a window size.
keywords:
  - gc_wiggle
tools:
  - sequenzautils:
      description: Sequenza-utils provides 3 main command line programs to transform common NGS file format - such as FASTA, BAM - to input files for the Sequenza R package. The program -gc_wiggle- takes fasta file as an input, computes GC percentage across the sequences and returns a file in the UCSC wiggle format.
      homepage: https://sequenza-utils.readthedocs.io/en/latest/index.html
      documentation: https://sequenza-utils.readthedocs.io/en/latest/index.html
      doi: 10.1093/annonc/mdu479
input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - fasta:
      type: file
      description: FASTA file
      pattern: "*.{fasta}"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - version:
      type: file
      description: File containing software version
      pattern: "*.{version.txt}"
  - wig:
      type: file
      description: GC Wiggle track file
      pattern: "*.{wig.gz}"

authors:
  - "@kaurravneet4123"