_pkgdown.yml

url: https://caranathunge.github.io/promor/

template:
  bootstrap: 5
  bootswatch: flatly
  theme: github-light
  mathjax: yes
  bslib:
    primary: "#17456B"
    secondary: "#FFB000"
    success: "#419FB7"
    base_font: {google: "Lato"}
    heading_font: {google: "Lato"}
    code_font: {google: "Source Code Pro"}
    pkgdown-nav-height: 100px

  includes:
    in_header: |
      <!-- Google tag (gtag.js) -->
      <script async src="https://www.googletagmanager.com/gtag/js?id=G-L7H9QD25V6"></script>
      <script>
      window.dataLayer = window.dataLayer || [];
      function gtag(){dataLayer.push(arguments);}
      gtag('js', new Date());

      gtag('config', 'G-L7H9QD25V6');
      </script>
params:
    ganalytics: G-L7H9QD25V6

development:
  mode: auto

navbar:
  structure:
    right: [twitter, github]
  components:
    twitter:
      icon: fa-twitter
      href: http://twitter.com/caranathunge
      aria-label: Twitter

articles:
- title: Getting started
  navbar: ~
  contents:
  - intro_to_promor

- title: Proteomics Data Analysis
  navbar: ~
  contents:
  - promor_no_techreps
  - promor_with_techreps

- title: Modeling
  navbar: ~
  contents:
  - promor_for_modeling

reference:
- title: Proteomics Data Analysis
- subtitle: Pre-processing
  contents:
  - create_df
  - aver_techreps
- subtitle: Quality Control
  contents:
  - filterbygroup_na
  - rem_sample
  - impute_na
  - normalize_data
- subtitle: Differential Expression Analysis
  contents:
  - find_dep
- subtitle: Visualization
  contents:
  - corr_plot
  - heatmap_na
  - impute_plot
  - norm_plot
  - volcano_plot
  - heatmap_de
- subtitle: Miscellaneous
  contents:
  - onegroup_only

- title: Building Models
- subtitle: Pre-processing
  contents:
  - pre_process
  - rem_feature
  - split_data
- subtitle: Modeling
  contents:
  - train_models
  - test_models
- subtitle: Visualization
  contents:
  - feature_plot
  - varimp_plot
  - performance_plot
  - roc_plot

- title: Data
  contents:
  - covid_fit_df
  - covid_norm_df
  - ecoli_norm_df
  - ecoli_fit_df

news:
releases:
  - text: "Version 0.2.0"
  - text: "Version 0.1.1"
  - text: "Version 0.1.0"

authors:
  Chathurani Ranathunge:
    href: "https://www.linkedin.com/in/chathurani-ranathunge"