counts.heatmap {msmsEDA} | R Documentation |
Heatmap showing the clustering of proteins and samples in a matrix of spectral counts
counts.heatmap(msnset,etit=NULL,fac=NULL,to.pdf=FALSE)
msnset |
A MSnSet with spectral counts in the expression matrix. |
etit |
The root name of the pdf file names where the heatmaps are sent. |
fac |
A factor which is used for the column color bar. |
to.pdf |
A logical indicating whether the heatmaps are sent to a pdf file. |
A heatmap of the msnset
expression matrix is plot.
If to.pdf
is TRUE two heatmaps are plot, the first is fitted on an A4
page, the second is plotted with 3mm by row, allocating enough height to make
the rownames readable.
If fac
is not NULL then a column color bar will show the levels
of the factor.
If to.pdf
is TRUE the heatmaps are sent to pdf files whose names
are the concatenation of etit
and "-HeatMap.pdf" and "-FullHeatMap.pdf",
otherwise etit
has no effect.
No value is returned
Josep Gregori
data(msms.dataset) msnset <- pp.msms.data(msms.dataset) counts.heatmap(msnset,fac = pData(msnset)$treat)