Read cellular position and annotation data into a list object.

Read cellular position and annotation data into a list object.

Usage

readHoodData(
  spe = NA,
  anno_col = NA,
  cell_pos_dat = NA,
  cell_anno_dat = NA,
  pos_col = NA
)

Arguments

spe

SpatialExperiment object.

anno_col

Character. The column name of the annotation to be used in the following neighbourhood analysis.

cell_pos_dat

data.frame object contains the cellular positions.

cell_anno_dat

data.frame object contains the cell annotations.

pos_col

Character. If the x and y are in the colData instead of in the SpatialCoords of spe, can specify this parameter.

Value

A SpatialExperiment object.

Examples

data("spe_test")

spe <- readHoodData(spe, anno_col = "celltypes")