comparePolygonExpression: Compare gene expression between polygon areas

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

Compare gene expression between polygon areas

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

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