# Project information
site_name:   Bio.jl
site_description: Bioinformatics and Computational Biology Infrastructure for Julia
site_author: The BioJulia Organisation
site_url: https://biojulia.github.io/Bio.jl/

# Repository
repo_url:  https://github.com/BioJulia/Bio.jl

# Copyright
copyright: Copyright (c) 2016 The BioJulia Organisation

# Documentation and theme
theme: biojulia
docs_dir: 'build'

# Options
extra:
  logo: images/biojl.png
  author:
    github: BioJulia

extra_css:
  - assets/Documenter.css

extra_javascript:
  - https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS_HTML
  - assets/mathjaxhelper.js

# Extensions
markdown_extensions:
  - extra
  - tables
  - fenced_code
  - codehilite
  - def_list

# Page tree
pages:
- Home: index.md
- Manual:
  - Installation: man/install.md
  - IO API: man/reading.md
  - Biological Sequences: man/seq.md
  - Alignments: man/alignments.md
  - Intervals: man/intervals.md
  - Biological Variation: man/var.md
  - Phylogenetic Trees: man/phylo.md
  - Structure: man/structure.md
  - Util: man/util.md
  - Tools: man/tools.md
- Reference:
  - Seq: lib/seq.md
- Contributing: man/contributing.md
