url: http://snikumbh.github.io/seqArchR

template:
  params:
      bootswatch: flatly
      ganalytics: G-9TC8HQS6CJ



navbar:
  structure:
    left:
    - home
    - intro
    - reference
    - articles
    - tutorials
    - news
    right: github
  components:
    home:
      icon: fas fa-home fa-lg
      href: index.html
    reference:
      text: Reference
      href: reference/index.html
    intro:
      text: Get started
      href: articles/seqArchR.html
    news:
      text: News
      href: news/index.html
    github:
      icon: fab fa-github fa-lg
      href: https://github.com/snikumbh/seqArchR/

reference:
- title: Main functions
  desc: Most basic functions
  contents:
    - seqArchR
    - set_config

- title: Prepare input
  desc: Functions enabling preparation of input
  contents:
    - prepare_data_from_FASTA
    - get_one_hot_encoded_seqs

- title: Getter functions
  desc: Getter functions for seqArchR result object
  contents:
    - get_clBasVec
    - get_clBasVec_k
    - get_clBasVec_m
    - get_seqClLab
    - seqs_str

- title: Visualization functions
  desc: Functions enabling visualization of intermediate and final output
  contents:
    - plot_arch_for_clusters
    - plot_ggseqlogo_of_seqs
    - viz_pwm
    - viz_bas_vec
    - viz_seqs_acgt_mat

- title: Manipulate seqArchR result
  desc: Functions to manipulate elements from seqArchR result
  contents:
    - collate_seqArchR_result
    - collate_clusters
    - get_seqs_clust_list
    - make_PWMs


articles:
- title: All vignettes
  desc: ~
  contents: '`seqArchR`'