Data_Portal_UG.yml

---
#
# GDC Docs - Config
#

site_name: GDC Docs
site_url: https://docs.gdc.cancer.gov
repo_url: https://github.com/NCI-GDC/gdc-docs
copyright: '© 2015-2024'
nav:
  - Data Portal:
      - Getting Started: Data_Portal/Users_Guide/getting_started.md
      - Quick Start: Data_Portal/Users_Guide/quick_start.md
      - Cohort Builder: Data_Portal/Users_Guide/cohort_builder.md
      - Analysis Center: Data_Portal/Users_Guide/analysis_center.md
      - Repository: Data_Portal/Users_Guide/Repository.md
      - Projects: Data_Portal/Users_Guide/Projects.md
      - BAM Slicing: Data_Portal/Users_Guide/BAMslicing.md
      - Clinical Data Analysis: Data_Portal/Users_Guide/clinical_data_analysis.md
      - Cohort Comparison: Data_Portal/Users_Guide/cohort_comparison.md
      - Cohort Level MAF: Data_Portal/Users_Guide/cohortMAF.md
      - Gene Expression Clustering: Data_Portal/Users_Guide/gene_expression_clustering.md
      - Mutation Frequency: Data_Portal/Users_Guide/mutation_frequency.md
      - OncoMatrix: Data_Portal/Users_Guide/oncomatrix.md
      - ProteinPaint: Data_Portal/Users_Guide/proteinpaint_lollipop.md
      - Sequence Reads: Data_Portal/Users_Guide/proteinpaint_bam.md
      - Set Operations: Data_Portal/Users_Guide/set_operations.md
      - For Developers: Data_Portal/Users_Guide/Developers_Guide.md
      - Release Notes: Data_Portal/Release_Notes/Data_Portal_Release_Notes.md
extra:
  project_root_dir: /
  project_org: GDC
  project_description: GDC Docs
  version: 1.0
theme:
  custom_dir: overrides
  favicon: images/favicon.ico
  features:
    - navigation.tabs
    - navigation.tabs.sticky
  logo: images/nih-header-logo-color.png
  name: material
  palette:
    primary: white
    scheme: gdc-accessible
markdown_extensions:
  - tables
  - pymdownx.superfences
  - pymdownx.tabbed:
      combine_header_slug: true
      alternate_style: true
      slugify: !!python/object/apply:pymdownx.slugs.slugify
        kwds:
          case: lower
  - pymdownx.details
plugins:
  - with-pdf:
      author: NCI GDC
      cover_title: GDC Data Portal User's Guide
      cover_subtitle: NCI Genomic Data Commons (GDC)
      cover_logo: docs/images/nih-header-logo-color.png
      toc_level: 3
      exclude_pages:
        - ^$
      enabled_if_env: ENABLE_PDF_EXPORT
      render_js: false
      output_path: ../docs/Data_Portal/PDF/Data_Portal_UG.pdf