mkgendocs.yml

sources_dir: docs/docs/gendocs_docs
templates_dir: docs/docs/gendocs_templates
repo: https://github.com/cwieder/pathintegrate
version: master

pages:

  - page: "reference/pathintegrate.md"
    source: "src/pathintegrate/pathintegrate.py"
    # functions:
    #   - MultiView
    #   - SingleView
    classes:
      - PathIntegrate

  # - page: "reference/identifier_conversion.md"
  #   source: "src/sspa/identifier_conversion.py"
  #   functions:
  #     - identifier_conversion
  #     - map_identifiers

  # - page: "reference/load_pathways.md"
  #   source: "src/sspa/process_pathways.py"
  #   functions:
  #     - process_reactome
  #     - process_kegg
  #     - process_gmt

  # - page: "reference/utils.md"
  #   source: "src/sspa/utils.py"
  #   functions:
  #     - load_example_data
  #     - t_tests
  #     - pathwaydf_to_dict

  # - page: "reference/ORA.md"
  #   source: "src/sspa/sspa_ora.py"
  #   classes:
  #     - sspa_ora

  # - page: "reference/GSEA.md"
  #   source: "src/sspa/sspa_gsea.py"
  #   functions:
  #     - sspa_gsea

  # - page: "reference/SVD.md"
  #   source: "src/sspa/sspa_svd.py"
  #   classes:
  #     - sspa_SVD

  # - page: "reference/kPCA.md"
  #   source: "src/sspa/sspa_kpca.py"
  #   classes:
  #     - sspa_KPCA

  # - page: "reference/ssClustPA.md"
  #   source: "src/sspa/sspa_cluster.py"
  #   classes:
  #     - sspa_ssClustPA

  # # - page: "reference/GSVA.md"
  # #   source: "src/sspa/sspa_gsva.py"
  # #   functions:
  # #     - sspa_gsva

  # - page: "reference/ssGSEA.md"
  #   source: "src/sspa/sspa_ssGSEA.py"
  #   classes:
  #     - sspa_ssGSEA

  # - page: "reference/zscore.md"
  #   source: "src/sspa/sspa_zscore.py"
  #   classes:
  #     - sspa_zscore