_pkgdown.yml

# pkgdown.yml
template:
  bootstrap: 5
  package: pkgdown

home:
  title: rANOMALY

reference:
  - title: "Preprocessing functions"
    contents:
      - dada2_fun
      - generate_phyloseq_fun
      - idTaxa_assign
      - idtaxa_assign_fasta_fun
      - fill_tax_fun
      - check_tax_fun
      - generate_tree_fun
      - decontam_fun
  - title: "Diversity analysis functions"
    contents:
      - rarefaction
      - bars_fun
      - diversity_alpha_fun
      - diversity_beta_light
  - title: "Differential analysis functions"
    contents:
      - deseq2_fun
      - metagenomeseq_fun
      - metacoder_fun
      - aggregate_fun
      - plsda_fun
      - heatmap_fun
  - title: "Others analysis"
    contents:
      - ASVenn_fun
      - core_soft_fun
  - title: "Utils functions"
    contents:
      - phy2tsv_fun
      - subset_fastx
      - dada_filter
      - update_metadata_fun
      - split_table_fun
      - csv2phyloseq_fun
      - export_to_stamp_fun
      - phy2cyto_fun
      - idtaxa_traindb
  - title: "Others functions"
    contents:
      - abundances
      - add_blast_fun
      - aggregate_taxa
      - aggregate_top_taxa
      - alphaPlot
      - assign_taxo_fun
      - count_fastq_sequences
      - count_seq
      - get.sample.name
      - ggrare
      - heatmapDeseq2_fun
      - heatmapDeseq2_funSub
      - launch_metacoder
      - list_venn_fun
      - mixedsort
      - mtabulate
      - pairwise.adonis
      - prune_db_fun
      - ranks_ref
      - remove_non_ascii
      - taxid_fun
      - top
      - top_taxa
      - VENNFUN

navbar:
  structure:
    left:  [intro, reference, articles, tutorials, news]
    right: [search, gitlab]
  components:
    gitlab:
      icon: fa-gitlab
      href: https://forgemia.inra.fr/umrf/ranomaly
      aria-label: GitLab repository