spatialAEH

spatialAEH

Description

Compute spatial variable genes with spatialDE method

Usage

spatialAEH(
  gobject = NULL,
  feat_type = NULL,
  spat_unit = NULL,
  spat_loc_name = "raw",
  SpatialDE_results = NULL,
  name_pattern = "AEH_patterns",
  expression_values = c("raw", "normalized", "scaled", "custom"),
  pattern_num = 6,
  l = 1.05,
  python_path = NULL,
  return_gobject = TRUE
)

Arguments

Argument	Description
gobject	Giotto object
feat_type	feature type
spat_unit	spatial unit
spat_loc_name	name for spatial locations
SpatialDE_results	results of ``spatialDE` <#spatialde>`_ function
name_pattern	name for the computed spatial patterns
expression_values	gene expression values to use
pattern_num	number of spatial patterns to look for
l	lengthscale
python_path	specify specific path to python if required
return_gobject	show plot

Details

This function is a wrapper for the SpatialAEH method implemented in the …

Value

An updated giotto object