overlapImagesToMatrix#

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Last Updated: Mar 11, 2023

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",
  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

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)

Value#

giotto object or data.table with aggregated information