processGiotto#

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Last Updated: Mar 11, 2023

Description#

Wrapper for the different Giotto object processing functions

Usage#

processGiotto(
  gobject,
  filter_params = list(),
  norm_params = list(),
  stat_params = list(),
  adjust_params = list(),
  verbose = TRUE
)

Arguments#

gobject

giotto object

filter_params

additional parameters to filterGiotto

norm_params

additional parameters to normalizeGiotto

stat_params

additional parameters to addStatistics

adjust_params

additional parameters to adjustGiottoMatrix; set to NULL if not required

verbose

be verbose (default is TRUE)

Details#

See filterGiotto, normalizeGiotto, addStatistics, and adjustGiottoMatrix. For more information about the different parameters in each step. If you do not provide them it will use the default values. If no adjustment is required, adjust_params must be set to NULL

Value#

giotto object