plotPatternMarkers-methods: heatmap of original data clustered by pattern markers...

In CoGAPS/CoGAPS: Coordinated Gene Activity in Pattern Sets

heatmap of original data clustered by pattern markers statistic

Description

heatmap of original data clustered by pattern markers statistic

Usage

plotPatternMarkers(
  object,
  data,
  patternMarkers,
  patternPalette,
  sampleNames,
  samplePalette = NULL,
  heatmapCol = bluered,
  colDendrogram = TRUE,
  scale = "row",
  ...
)

Arguments

object	an object of type CogapsResult
data	the original data as a matrix
patternMarkers	pattern markers to be plotted, as generated by the patternMarkers function
patternPalette	a vector indicating what color should be used for each pattern
sampleNames	names of the samples to use for labeling
samplePalette	a vector indicating what color should be used for each sample
heatmapCol	pallelet giving color scheme for heatmap
colDendrogram	logical indicating whether to display sample dendrogram
scale	character indicating if the values should be centered and scaled in either the row direction or the column direction, or none. The default is "row".
...	additional graphical parameters to be passed to heatmap.2

Value

heatmap of the data values for the patternMarkers

See Also

heatmap.2

CoGAPS/CoGAPS documentation built on April 12, 2024, 3:12 a.m.