overlapImagesToMatrix: overlapImagesToMatrix
In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

overlapImagesToMatrix

R Documentation

overlapImagesToMatrix

Description

create a count matrix based on overlap results from calculateOverlapPolygonImages

Usage

overlapImagesToMatrix(
  gobject,
  name = "raw",
  poly_info = "cell",
  feat_info = "protein",
  name_overlap = "images",
  aggr_function = "sum",
  image_names = NULL,
  spat_locs_name = "raw",
  return_gobject = TRUE
)

Arguments

`gobject`	giotto object
`name`	name for the overlap count matrix
`poly_info`	polygon information
`feat_info`	feature information
`name_overlap`	name of the overlap
`aggr_function`	function to aggregate image information (default = sum)
`image_names`	names of images you used
`spat_locs_name`	name for spatial centroids / locations associated with matrix
`return_gobject`	return giotto object (default: TRUE)