createHeatmap_DT: createHeatmap_DT

In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

createHeatmap_DT

Description

creates order for clusters

Usage

createHeatmap_DT(
  gobject,
  expression_values = c("normalized", "scaled", "custom"),
  genes,
  cluster_column = NULL,
  cluster_order = c("size", "correlation", "custom"),
  cluster_custom_order = NULL,
  cluster_cor_method = "pearson",
  cluster_hclust_method = "ward.D",
  gene_order = c("correlation", "custom"),
  gene_custom_order = NULL,
  gene_cor_method = "pearson",
  gene_hclust_method = "complete"
)

Arguments

gobject	giotto object
expression_values	expression values to use
genes	genes to use
cluster_column	name of column to use for clusters
cluster_order	method to determine cluster order
cluster_custom_order	custom order for clusters
cluster_cor_method	method for cluster correlation
cluster_hclust_method	method for hierarchical clustering of clusters
gene_order	method to determine gene order
gene_custom_order	custom order for genes
gene_cor_method	method for gene correlation
gene_hclust_method	method for hierarchical clustering of genes

Details

Creates input data.tables for plotHeatmap function.

Value

list

RubD/Giotto documentation built on April 29, 2023, 5:52 p.m.