plotHeatmap: Plot Heatmap of Data

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Plot Heatmap of Data

Description

Plot Heatmap of Data

Usage

plotHeatmap(
  dataset = NULL,
  clustNum = 0,
  ftlist = NULL,
  plotAll = F,
  plotUniques = F,
  param = F,
  aggregated = F,
  labelFeatures = T,
  labelSamples = F,
  factor = NULL,
  stratify = F,
  scaleCol = 1,
  alpha = 0.05,
  width = 6,
  height = 12
)

Arguments

dataset	MicroVis dataset. Defaults to the active dataset
clustNum	Number of clusters for rows (features)
ftlist	(Optional) List of specific features to plot
plotAll	Plot all features? Defaults to FALSE
plotUniques	Plot only features that are uniquely expressed in a certain group? Defaults to FALSE
param	Perform parametrized or nonparametrized univariate analysis for significance testing? Defaults to FALSE
aggregated	Aggregate samples in the same group into a single column? Defaults to FALSE
labelFeatures	Label rows with the feature names? Defaults to TRUE
labelSamples	Label the columns with the sample names (at the bottom)? Defaults to FALSE
factor	Factor to perform univariate analysis on
stratify	Stratify the groups by another factor? Defaults to FALSE
scaleCol	Color scaling to improve contrast between certain cells. Value should be 0 or more. Defaults to 0 (no scaling)
alpha	Significance threshold. Defaults to 0.05
width	Width of saved heatmap figure in inches. Defaults to 6 in
height	Height of saved heatmap figure in inches. Defaults to 8 in

Value

Heatmap of relative abundances of features in each group

microresearcher/MicroVis documentation built on Feb. 8, 2024, 10:59 a.m.