_quarto.yml

project:
  type: book
  output-dir: docs

book:
  title: "Nonlinear mixed-effects modelling with nlmixr2"
  author: 
  - Matthew Fidler, Novartis
  - Justin J. Wilkins, Occams
  
  date: "24/10/2023"
  
  page-footer:
    left: |
      Nonlinear mixed-effects modelling with nlmixr2 was written by Matthew Fidler, Justin Wilkins, 
      William Denney, John Harrold, Richard Hooijmaaijers, Rik 
      Schoemaker, Mirjam Trame, Yuan Xiong and Huijuan Xu.
    right: |
      This book was built with <a href="https://quarto.org/">Quarto</a>.
  repo-url: https://github.com/kestrel99/nlmixr2_book/
  repo-branch: main
  
  chapters:
    - index.qmd
    - part: "Introduction"
      chapters: 
        - 01_intro.qmd
        - 02_prerequisites.qmd
        - 03_history.qmd
        - 04_intro_to_nlme.qmd
    - part: Simulations with `rxode2`
      chapters: 
        - 05_getting_started.qmd
        - 06_events.qmd
        - 07_single_subjects.qmd
        - 08_populations.qmd
        - 09_more_complex_examples.qmd
    - part: "Modeling with `nlmixr2`"
      chapters: 
        - 10_parameter_estimation_and_model_fitting.qmd
        - 11_diagnostics_and_evaluation.qmd
        - 12_handling_covariate_effects.qmd
        - 13_model_selection_and_comparison.qmd
        - 14_case_studies_and_practical_applications.qmd
        - 15_tracking_work_with_shinymixr.qmd
    - part: "Advanced topics"
      chapters: 
        - 16_inside_mixrverse.qmd
        - 17_extending_mixrverse.qmd
    - part: "The mixrverse"
      chapters: 
        - 18_qualifying_mixrverse.qmd
        - 19_babelmixr.qmd
        - 20_mixrverse.qmd
    - part: "The future"
      chapters: 
        - 21_future_directions.qmd
        - 22_final_thoughts.qmd
    - function_reference.qmd
    - references.qmd

bibliography: references.bib
csl: vancouver.csl

format:
  html:
    theme: litera 
  pdf:
    documentclass: scrreprt

editor: source