subsetGiottoLocs: Subset by spatial locations

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

Subset by spatial locations

Description

Subsets Giotto object based on spatial locations

Usage

subsetGiottoLocs(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  spat_loc_name = NULL,
  x_max = NULL,
  x_min = NULL,
  y_max = NULL,
  y_min = NULL,
  z_max = NULL,
  z_min = NULL,
  poly_info = "cell",
  return_gobject = TRUE,
  verbose = FALSE
)

Arguments

gobject	giotto object
spat_unit	spatial unit (e.g. "cell")
feat_type	feature type (e.g. "rna", "dna", "protein")
spat_loc_name	name of spatial locations to use
x_max, x_min, y_max, y_min, z_max, z_min	minimum and maximum x, y, and z coordinates to subset to
poly_info	polygon information to use
return_gobject	return Giotto object
verbose	be verbose

Details

Subsets a Giotto based on spatial locations and for one provided spatial unit if return_gobject = FALSE, then a filtered combined metadata data.table will be returned

Value

giotto object

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