calculateOverlapParallel: calculateOverlapParallel

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

calculateOverlapParallel

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

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