name: biscuit_index
description: Indexes a reference genome for use with Biscuit
keywords:
  - biscuit
  - DNA methylation
  - WGBS
  - scWGBS
  - bisulfite sequencing
  - index
  - reference
  - fasta

tools:
  - biscuit:
      description: A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data
      homepage: https://huishenlab.github.io/biscuit/
      documentation: https://huishenlab.github.io/biscuit/docs/alignment
      tool_dev_url: https://github.com/huishenlab/biscuit
      doi: ""
      licence: ["MIT"]

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

output:
  - index:
      type: dir
      description: Biscuit genome index directory
      pattern: "BiscuitIndex"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"

authors:
  - "@njspix"