ggpicrust2/_pkgdown.yml at main · cafferychen777/ggpicrust2 · GitHub

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url: https://cafferyang.com/ggpicrust2/

template:
  bootstrap: 5

navbar:
  structure:
    left: [reference, articles, news]
    right: [github]
  components:
    github:
      icon: fab fa-github
      href: https://github.com/cafferychen777/ggpicrust2
      aria-label: GitHub repository

articles:
  - title: Tutorials
    navbar: Tutorials
    contents:
      - using_ggpicrust2
      - gsea_analysis

reference:
  - title: Core Workflow
    contents:
      - ggpicrust2
      - ko2kegg_abundance
      - pathway_daa
      - pathway_annotation
      - pathway_errorbar
      - pathway_errorbar_table
      - pathway_heatmap
      - pathway_pca
      - pathway_volcano
      - pathway_ridgeplot
      - compare_daa_results
      - compare_metagenome_results

  - title: Taxa Contribution
    contents:
      - read_contrib_file
      - read_strat_file
      - aggregate_taxa_contributions
      - taxa_contribution_bar
      - taxa_contribution_heatmap

  - title: GSEA
    contents:
      - pathway_gsea
      - visualize_gsea
      - compare_gsea_daa
      - gsea_pathway_annotation
      - prepare_gene_sets

  - title: Data
    contents:
      - metadata
      - ko_abundance
      - kegg_abundance
      - metacyc_abundance
      - daa_results_df
      - daa_annotated_results_df

  - title: Reference Data
    contents:
      - ko_reference
      - kegg_pathway_reference
      - ec_reference
      - metacyc_reference
      - ko_to_kegg_reference
      - ko_to_go_reference
      - metacyc_to_ec_reference

  - title: Utilities
    contents:
      - import_MicrobiomeAnalyst_daa_results
      - color_themes
      - legend_annotation_utils
      - starts_with("create_")
      - starts_with("get_")
      - starts_with("calculate_")
      - starts_with("preview_")
      - starts_with("format_")
      - starts_with("smart_")
      - resolve_annotation_overlaps
      - safe_extract