_pkgdown.yml

url: https://satijalab.github.io/seurat-object/
destination: docs
template:
  params:
    bootswatch: flatly

development:
  mode: auto

reference:
  - title: The Seurat Class and Interaction Methods
    contents:
      - "Seurat-class"
      - "Seurat-validity"
      - has_concept("seurat")
  - title: The v5 Assay Class and Interaction Methods
    contents:
      - has_concept("assay5")
  - title: The v3 Assay Class and Interaction Methods
    contents:
      - "Assay-class"
      - has_concept("assay")
  - title: The DimReduc and JackStrawData Classes and Interaction Methods
    contents:
      - "DimReduc-class"
      - "DimReduc-validity"
      - has_concept("dimreduc")
      - "JackStrawData-class"
      - "JackStrawData-methods"
      - has_concept("jackstraw")
  - title: Imaging-Based Spatial Classes and Methods
  - contents:
      - has_concept("fov")
      - has_concept("segmentation")
      - has_concept("spatial")
  - title: The SeuratCommand Class and Interaction Methods
    contents:
      - "SeuratCommand-class"
      - has_concept("command")
  - title: The SpatialImage Class and Interaction Methods
    contents:
      - "SpatialImage-class"
      - "SpatialImage-methods"
      - has_concept("spatialimage")
  - title: The Graph and Neighbor Classes and Interaction Methods
    contents:
      - "Graph-class"
      - has_concept("graph")
      - "Neighbor-class"
      - has_concept("neighbor")
  - title: Accessing and Setting Object Data
    contents:
      - has_concept("data-access")
  - title: Utility Functions
    contents:
      - "set-if-null"
      - has_concept("utils")
  - title: Package Information
    contents:
      - "SeuratObject-package"
      - pbmc_small
  - title: Logical Maps
    contents:
      - has_concept("logmap")