Cluster sample via Seurat

Cluster sample via Seurat

findSeuratClusters(
  object,
  NormalizeData = list(),
  ScaleData = list(),
  FindVariableFeatures = list(selection.method = "vst", nfeatures = 2000),
  RunPCA = list(npcs = 60),
  FindNeighbors = list(dims = 1:30),
  FindClusters = list(resolution = 0.8),
  ...
)

Arguments

object

A valid spata-object.

NormalizeData

A named list of arguments given to Seurat::NormalizeData(), TRUE or FALSE.

ScaleData

A named list of arguments given to Seurat::ScaleData(), TRUE or FALSE.

Hint: If set to TRUE or the argument-list provided does not specify the argument features input for argument features is set to base::rownames(seurat_object).

FindVariableFeatures

A named list of arguments given to Seurat::FindVariableFeatures(), TRUE or FALSE.

RunPCA

A named list of arguments given to Seurat::RunPCA(), TRUE or FALSE.

FindNeighbors

A named list of arguments given to Seurat::FindNeighbors(), TRUE or FALSE.

FindClusters

A named list of arguments given to Seurat::FindClusters(), TRUE or FALSE.

...

Used to absorb deprecated arguments or functions.

Value

A tidy spata-data.frame containing the cluster variables.