calculateOverlapPolygonImages: calculateOverlapPolygonImages

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

calculateOverlapPolygonImages

Description

calculate overlap between cellular structures (polygons) and images (intensities)

Usage

calculateOverlapPolygonImages(
  gobject,
  name_overlap = "protein",
  spatial_info = "cell",
  poly_ID_names = NULL,
  image_names = NULL,
  poly_subset = NULL,
  return_gobject = TRUE,
  verbose = TRUE,
  ...
)

Arguments

gobject	giotto object
name_overlap	name for the overlap results (default to feat_info parameter)
spatial_info	polygon information
poly_ID_names	(optional) list of poly_IDs to use
image_names	names of the images with raw data
poly_subset	numerical values to subset the polygon spatVector
return_gobject	return giotto object (default: TRUE)
verbose	be verbose
...	additional params to exact_extract

Value

giotto object or data.table with overlapping information

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.