Screenshots and Graphics
affy: image of Affymetrix
probe-level intensities, image function.
affy: MA-plots for
three chips, mva.pairs
function.
edd: stratified
matrix boxplots, matbox.strat
function.
geneplotter: Comparing mean expression levels
between two groups.
geneplotter: color image of samples x genes
expression matrix, separately for each strand, alongChrom function.
geneplotter: cumulative plot of expression
measures along a chromosome, alongChrom function.
marrayPlots: image of Cy3
background intensities, maImage function.
marrayPlots:
boxplots of log-ratios log_2 R/G by print-tip group,
maBoxplot function.
 annotate: html report with links
to LocusLink, ll.htmlpage
function. |
 annotate: result of PubMed
search in R, pm.getabst
function. |
 affy: widget for
data input from Affymetrix CDF and CEL files, ReadAffy function. |
 marrayInput: widget for data input from cDNA
image analysis files (e.g. GenePix, Spot), widget.marrayRaw function. |
 hexbin: Plot
distinguishing cells between two hexbin objects, hdiffplot function. |
 graph and Rgraphviz:
Spoke model graph of TAP protein complex data, created using
graph and plotted with Rgraphviz. |
 graph and Rgraphviz:
Graph of interacting protein pairs with proteins (nodes) colored
according to cell cycle expression profile cluster membership.
Created with graph and plotted using Rgraphviz. |
 graph and
Rgraphviz: Completely connected subgraphs for clusters of
genes with similar expression profiles. Created with graph
and plotted using Rgraphviz. |
 graph and Rgraphviz:
Graph representation of the integrin mediated cell adhesion pathway
with nodes containing pie charts displaying expression levels for
the corresponding gene over a set of samples. |
 tkWidgets:
Interactive vignette browser providing user's with enhanced
documentation features. vExplorer function. |
 geneplotter: The
plotChr function is used to plot the smooths of the
sense and anti-sense from 5' to 3' (here we are using human
chromosome 21). |