_pkgdown.yml

destination: docs

navbar:
  title: "SignacX"
  left:
    - text: "Install"
      href: articles/install.html
    - text: "Data portal"
      href: articles/dataportal.html
    - text: "Quick start"
      href: articles/quickstart.html
    - text: "Vignettes"
      menu:
        - text: Introductory Vignettes
        - text: "PBMCs 1K tutorial - Seurat integration"
          href: articles/signac-Seurat_pbmcs.html
        - text: "Integrating SignacX with SPRING and Seurat"
          href: articles/springintegration.html
        - text: -------
        - text: Advanced use
        - text: "Learning from single cell data"
          href: articles/signac-SPRING_Learning.html
        - text: "Classifying non-human single cell data"
          href: articles/Crabeating_vignette.html
        - text: "Identifying disease-enriched cell types with SignacX"
          href: articles/signac-Seurat_AMP.html
        - text: -------
        - text: Benchmarking
        - text: "Flow cytometry synovium: SingleR vs. SignacX"
          href: articles/signac-Seurat_AMP_RA.html
        - text: "Flow cytometry synovium: FastSignac vs Signac"
          href: articles/SignacFast-Seurat_AMP_RA.html
        - text: "CITE-seq PBMCs"
          href: articles/signac-Seurat_CITE-seq.html
        - text: -------
        - text: Other
        - text: "Genes of immune and pharmacological interest"
          href: articles/genesofinterest.html      
    - text: FAQ
      href: "https://github.com/mathewchamberlain/SignacX/discussions"