cloudgene.yaml

id: nf-gwas
name: nf-gwas
version: 0.1.9
description: A Nextflow GWAS pipeline.
author: Lukas Forer and Sebastian Schönherr
website: https://github.com/genepi/nf-gwas
logo: https://avatars.githubusercontent.com/u/930103?s=200&v=4

workflow:

  steps:

    - name: Running nf-gwas
      type: nextflow
      script: main.nf
      # params without UI
      params.project: ${job_id}

  inputs:

    - id: genotypes
      description: Genotypes
      type: app_list
      category: genotypes

    - id: phenotypes_filename
      description: Phenotypes File
      type: local_file
      required: true

    - id: phenotypes_columns
      description: Phenotypes Columns
      details: Multiple columns can be separated by comma (e.g. Pheno1,Pheno2)
      type: text
      required: true

    - id: phenotypes_binary_trait
      description: Phenotypes Type
      type: list
      required: true
      value: false
      values:
        false: Quantitative
        true: Binary

    - id: regenie_test
      description: Test Model
      type: list
      required: true
      value: additive
      values:
        additive: Additive
        dominant: Dominant
        recessive: Recessive

  outputs:

    - id: outdir
      description: GWAS Results
      type: local_folder