subsetGiotto#

Last Updated: Jan 14, 2025

Description#

Subsets Giotto object including previous analyses.

Usage#

subsetGiotto(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  cell_ids = NULL,
  feat_ids = NULL,
  gene_ids = NULL,
  poly_info = NULL,
  all_spat_units = TRUE,
  all_feat_types = TRUE,
  x_max = NULL,
  x_min = NULL,
  y_max = NULL,
  y_min = NULL,
  verbose = TRUE,
  toplevel_params = 2
)

Arguments#

`gobject`	giotto object
`spat_unit`	spatial unit
`feat_type`	feature type to use
`cell_ids`	cell IDs to keep
`feat_ids`	feature IDs to keep
`poly_info`	polygon information to use
`all_spat_units`	subset all spatial units with selected feature ids
`all_feat_types`	subset all feature type data with selected cell ids
`x_max, x_min, y_max, y_min`	minimum and maximum x and y coordinates to keep for feature coordinates
`verbose`	be verbose
`toplevel_params`	parameters to extract

Details#

Subsets a Giotto object for a specific spatial unit and feature type

Value#

giotto object