Compare gene expression between polygon areas#

Last Updated: Oct 02, 2023

Description#

Compare gene expression between polygon areas

Usage#

comparePolygonExpression(
  gobject,
  polygon_name = "selections",
  spat_unit = "cell",
  feat_type = "rna",
  selected_feats = "top_genes",
  expression_values = "normalized",
  method = "scran",
  ...
)

Arguments#

`gobject`	A Giotto object
`polygon_name`	name of polygon selections
`spat_unit`	spatial unit (e.g. “cell”)
`feat_type`	feature type (e.g. “rna”, “dna”, “protein”)
`selected_feats`	vector of selected features to plot
`expression_values`	gene expression values to use (“normalized”, “scaled”, “custom”)
`method`	method to use to detect differentially expressed feats (“scran”, “gini”, “mast”)
`...`	Arguments passed to Heatmap

Value#

A ComplexHeatmap::Heatmap object