mkdocs.yml

# Project information
site_name: FISH-quant
site_description: Analyze smFISH images in ImJoy
site_author: Florian MUELLER, Arthur IMBERT
site_url: https://github.com/fish-quant/fq-imjoy/

# Repository
repo_name: GitHub
repo_url: https://github.com/fish-quant/fq-imjoy.git
edit_uri: ""

# Copyright
copyright: 'Copyright © 2019 Florian MUELLER, Arthur IMBERT'

# Configuration
theme:
  name: 'readthedocs'
  #name: mkdocs
  # 404 page
  static_templates:
    - 404.html

  # Don't include MkDocs' JavaScript
  #include_search_page: false
  #search_index_only: true

  # Default values, taken from mkdocs_theme.yml
  language: en
  feature:
    tabs: true
  palette:
    primary: indigo
    accent: indigo
  font:
    text: Roboto
    code: Roboto Mono
  favicon: /img/icons8-eukaryotic-cells-filled-100.png
#   logo:
#     icon: wb_sunny

# Customization
extra:
  social:
    - type: github-alt
      link: https://github.com/fish-quant

# MD extension
markdown_extensions:
  - toc:
      permalink: true
  - admonition
  - pymdownx.details
  - pymdownx.tasklist
  - pymdownx.superfences
  - pymdownx.tilde
  - attr_list

nav:
    - Overview: index.md   # Needed for material theme but not for others
    
    - ImJoy:
      - Overview: imjoy-overview.md
      - Plugin engine: imjoy-installation.md

    - FISH-quant:

      - Overview: fq-overview.md
      - Data specifications: data.md
      - Loading data: fq-load-data.md
      - Spot detection: fq-spot-detection.md
      - Kaibu: kaibu.md

    - Support workflows:
      - Split channels: fiji-split-channels.md 
      - SNR calculation: snr.md
      
    - Advanced:
      - Developer notes: developer-notes.md
      
    - More:
      - Licence: licence.md
      - Contact: contact.md




#theme:
#  name: 'material'