calculateOverlapParallel#

Last Updated: Sep 07, 2023

Description#

calculate overlap between cellular structures (polygons) and features (points)

Usage#

calculateOverlapParallel(
  gobject,
  name_overlap = NULL,
  spatial_info = "cell",
  feat_info = "rna",
  poly_ID_names = "all",
  polygon_group_size = 500,
  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
`feat_info`	feature information
`poly_ID_names`	list of poly_IDs to use
`polygon_group_size`	number of polygons to process per parallelization group
`return_gobject`	return giotto object (default: TRUE)
`verbose`	be verbose

Details#

parallel follows the future approach. This means that plan(multisession) does not work, since the underlying terra objects are internal C pointers. plan(multicore) is also not supported for Rstudio users.

Value#

giotto object or spatVector with overlapping information