fuzzPlot {ClueR} | R Documentation |
Takes in a time-course matrix and its clustering results as a cmeans clustering object. Produce a plot to visualize the clustering results.
fuzzPlot(Tc, clustObj, mfrow = c(1, 1), cols, min.mem = 0, new.window = FALSE, llwd = 3)
Tc |
a numeric matrix to be clustered. The columns correspond to the time-course and the rows correspond to phosphorylation sites. |
clustObj |
the clustering of Tc generated from cmeans or kmeans clustering. |
mfrow |
control the subplots in graphic window. |
cols |
color palette to be used for plotting. If the color argument remains empty, the default palette is used. |
min.mem |
phosphorylation sites with membership values below min.mem will not be displayed. |
new.window |
should a new window be opened for graphics. |
llwd |
line width. Default is 3. |
# load the human ES phosphoprotoemics data (Rigbolt et al. Sci Signal. 4(164):rs3, 2011) data(hES) # apply cmeans clustering to partition the data into 11 clusters clustObj <- cmeans(hES, centers=11, iter.max=50, m=1.25) # visualize clustering reuslts fuzzPlot(hES, clustObj, mfrow = c(3,4))