PlotHeatMap: Create Heat Map Plot

In xia-lab/MetaboAnalystR: An R Package for Comprehensive Analysis of Metabolomics Data

Create Heat Map Plot

Description

Plot a heatmap based on results from t-tests/ANOVA, VIP or randomforest

Usage

PlotHeatMap(
  mSetObj = NA,
  imgName,
  format = "png",
  dpi = 72,
  width = NA,
  dataOpt,
  scaleOpt,
  smplDist,
  clstDist,
  palette,
  fzCol,
  fzRow,
  fzAnno,
  annoPer,
  unitCol,
  unitRow,
  rowV = T,
  colV = T,
  var.inx = NULL,
  border = T,
  grp.ave = F,
  show.legend = T,
  show.annot.legend = T,
  showColnm = T,
  showRownm = T,
  maxFeature = 2000
)

Arguments

mSetObj	Input name of the created mSet Object
imgName	Input a name for the plot
format	Select the image format, "png", or "pdf".
dpi	Input the dpi. If the image format is "pdf", users need not define the dpi. For "png" images, the default dpi is 72. It is suggested that for high-resolution images, select a dpi of 300.
width	Input the width, there are 2 default widths, the first, width = NULL, is 10.5. The second default is width = 0, where the width is 7.2. Otherwise users can input their own width.
dataOpt	Set data options
scaleOpt	Set the image scale
smplDist	Input the sample distance method
clstDist	Input the clustering distance method
palette	Input color palette choice
rowV	Default is set to T
colV	Default is set to T
var.inx	Default is set to NA
border	Indicate whether or not to show cell-borders, default is set to T
grp.ave	Logical, default is set to F
viewOpt	Set heatmap options, default is set to "detail"
metadata	metadata

Author(s)

Jeff [e-mail] McGill University, Canada License: GNU GPL (>= 2)

xia-lab/MetaboAnalystR documentation built on Dec. 23, 2024, 3:44 p.m.