plot_multiple_branches_heatmap: Plot monocle pseudotime over multiple branches

In whtns/seuratTools: Tools for Managing Seurat Objects

Plot monocle pseudotime over multiple branches

Description

Plots heatmap to de

Usage

plot_multiple_branches_heatmap(
  cds,
  branches,
  branches_name = NULL,
  cluster_rows = TRUE,
  hclust_method = "ward.D2",
  num_clusters = 6,
  hmcols = NULL,
  add_annotation_row = NULL,
  add_annotation_col = NULL,
  show_rownames = FALSE,
  use_gene_short_name = TRUE,
  norm_method = c("vstExprs", "log"),
  scale_max = 3,
  scale_min = -3,
  trend_formula = "~sm.ns(Pseudotime, df=3)",
  return_heatmap = FALSE,
  cores = 1
)

Arguments

cds	CellDataSet for the experiment
branches	The terminal branches on the developmental tree to be investigated.
cores

whtns/seuratTools documentation built on Oct. 28, 2024, 7:18 a.m.