complexHeatmap-methods: description of function plot.beans

Description Usage Arguments

Description

plot the PCR heatmap using the heatmap.3 function included in this package

Usage

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complexHeatmap(x, ofile = NULL, colGroups = NULL, rowGroups = NULL,
  colColors = NULL, rowColors = NULL, pdf = FALSE, subpath = "",
  main = "", heapmapCols = function(x) {     c("darkgrey", bluered(x)) },
  brks = 10, X11type = "cairo")

Arguments

x

the StefansExpressionSet object

ofile

the outfile to create in the x@outpath folder

colGroups

columns in the samples table to use to order the data (first == order)

rowGroups

rows in the annotation table to use to color the heatmap rows (first == order)

colColors

a named list of column color vectors

rowColors

a named list of row color vectors

pdf

export as pdf (default = FALSE)

subpath

the subpath for the plots (default = ”)

heapmapCols

the color function to calculate the heatmap colours ( default function (x) c("darkgrey",bluered(x)) )

brks

how many breaks should the expression value color key have (default=10)


stela2502/StefansExpressionSet documentation built on May 30, 2019, 2:38 p.m.