--- a
+++ b/man/vrHeatmapPlot.Rd
@@ -0,0 +1,56 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/visualization.R
+\name{vrHeatmapPlot}
+\alias{vrHeatmapPlot}
+\title{HeatmapPlot}
+\usage{
+vrHeatmapPlot(
+  object,
+  assay = NULL,
+  features = NULL,
+  group.by = "clusters",
+  norm = TRUE,
+  scaled = TRUE,
+  show_row_names = NULL,
+  cluster_rows = TRUE,
+  show_heatmap_legend = FALSE,
+  outlier.quantile = 0.99,
+  highlight.some = FALSE,
+  n_highlight = 30,
+  font.size = 13.2,
+  ...
+)
+}
+\arguments{
+\item{object}{a VoltRon object}
+
+\item{assay}{assay name (exp: Assay1) or assay class (exp: Visium, Xenium), see \link{SampleMetadata}. 
+if NULL, the default assay will be used, see \link{vrMainAssay}.}
+
+\item{features}{a set of features to be visualized from \link{vrFeatures} of raw or normalized data.}
+
+\item{group.by}{a column of metadata from \link{Metadata} used as grouping label for the spatial entities}
+
+\item{norm}{if TRUE, the normalized data is used}
+
+\item{scaled}{if TRUE, the data will be scaled before visualization}
+
+\item{show_row_names}{if TRUE, row names of the heatmap will be shown}
+
+\item{cluster_rows}{if TRUE, the rows of the heatmap will be clustered}
+
+\item{show_heatmap_legend}{if TRUE, the heatmap legend is shown}
+
+\item{outlier.quantile}{quantile for detecting outliers whose values are set to the quantile, change to lower values to adjust large number of outliers, default: 0.99}
+
+\item{highlight.some}{if TRUE, some rows will be showed at random, reproducible by \code{seed} argument}
+
+\item{n_highlight}{the number of row labels shown, if \code{show_row_names} is TRUE}
+
+\item{font.size}{font size}
+
+\item{...}{additional parameters passed to \link{getVariableFeatures}}
+}
+\description{
+HeatmapPlot
+}