_pkgdown.yml

url: https://statfungen.github.io/pecotmr

template:
 bootstrap: 5
 light-switch: true
 math-rendering: katex
 bslib:
  base_font: { google: "Roboto" }
  heading_font: { google: "Roboto Slab" }
  code_font: { google: "JetBrains Mono" }

development:
 mode: auto

home:
 links:
 - text: Learn more
   href: https://github.com/StatFunGen/pecotmr
 - text: Report a bug
   href: https://github.com/StatFunGen/pecotmr/issues

navbar:
 structure:
  left: [intro, reference, articles]
  right: [search, github, lightswitch]
 components:
  intro:
   icon: fa fa-play-circle
   text: Get Started
   href: articles/fine-mapping.html
   aria-label: Get started with pecotmr
  reference:
   icon: fa fa-file-code
   text: Functions
   href: reference/index.html
   aria-label: Function reference
  articles:
   icon: fa fa-book-reader
   text: Vignettes
   href: articles/index.html
   aria-label: Articles and vignettes
  github:
   icon: fab fa-github
   href: https://github.com/StatFunGen/pecotmr
   aria-label: View source on GitHub

articles:
  - title: "Quality Control"
    desc: >
      Allele alignment and LD-mismatch QC for GWAS and QTL summary
      statistics.
    contents:
    - rss-qc
  - title: "Fine-mapping"
    desc: >
      SuSiE-family fine-mapping for individual-level QTL data, QTL
      summary statistics, and GWAS summary statistics.
    contents:
    - fine-mapping
  - title: "TWAS"
    desc: >
      Training TWAS weights from QTL data (individual-level and
      summary-statistics, single and multi-context) and computing
      per-gene TWAS Z-scores from GWAS summary statistics.
    contents:
    - twas-weights
    - twas-zscore
  - title: "Colocalization"
    desc: >
      Multi-task colocalization with ColocBoost.
    contents:
    - colocboost-pipeline
  - title: "Enrichment Analysis"
    contents:
    - xqtl-enrichment
  - title: "Resources"
    navbar: ~
    contents:
    - qtl-gwas-resources

footer:
 structure:
  left: developed_by
  right: built_with