Arguments
orderNodesBy
NULL (default), NA, or a vector of dataset
names or indices. Controls how nodes are ordered on the plot (see details).
orderSamplesBy
NULL (default), NA, or a vector
containing a single dataset name or index. Controls how samples are ordered
on the plot (see details).
plotNodeNames
logical; controls whether the node names are
drawed on the bottom axis.
plotSampleNames
logical; controls whether the sample names are
drawed on the left axis.
plotModuleNames
logical; controls whether module names are drawed.
The default is for module names to be drawed when multiple modules
are drawn.
main.line
the number of lines into the top margin at which the plot
title will be drawn.
drawBorders
logical; if TRUE, borders are drawn around the
weighted degree, node conribution, and module summary
bar plots.
lwd
line width for borders and axes.
naxt.line
the number of lines into the bottom margin at which the node
names will be drawn.
saxt.line
the number of lines into the left margin at which the sample
names will be drawn.
maxt.line
the number of lines into the bottom margin at which the
module names will be drawn.
xaxt.line
the number of lines into the bottom margin at which the
x-axis tick labels will be drawn on the module summary bar plot.
xaxt.tck
the size of the x-axis ticks for the module summary bar
plot.
xlab.line
the number of lines into the bottom margin at which the
x axis label on the module summary bar plot(s) will be drawn.
yaxt.line
the number of lines into the left margin at which the
y-axis tick labels will be drawn on the weighted degree and node
contribution bar plots.
ylab.line
the number of lines into the left margin at which the
y axis labels on the weighted degree and node contribution
bar plots will be drawn.
yaxt.tck
the size of the y-axis ticks for the weighted degree and
node contribution bar plots.
laxt.line
the distance from the legend to draw the legend axis
labels, as multiple of laxt.tck.
laxt.tck
size of the ticks on each axis legend relative to the
size of the correlation, edge weights, and data matrix heatmaps.
legend.main.line
the distance from the legend to draw the legend
title.
cex.axis
relative size of the node and sample names.
cex.lab
relative size of the module names and legend titles.
cex.main
relative size of the plot titles.
dataCols
a character vector of colors to create a gradient from for
the data heatmap (see details). Automatically determined if NA or
NULL.
dataRange
the range of values to map to the dataCols gradient
(see details). Automatically determined if NA or NULL.
corCols
a character vector of colors to create a gradient from for
the correlation structure heatmap (see details).
corRange
the range of values to map to the corCols gradient
(see details).
netCols
a character vector of colors to create a gradient from for
the network edge weight heatmap (see details).
netRange
the range of values to map to the corCols gradient
(see details). Automatically determined if NA or NULL.
degreeCol
color to use for the weighted degree bar plot.
contribCols
color(s) to use for the node contribution bar plot
(see details).
summaryCols
color(s) to use for the node contribution bar plot
(see details).
naCol
color to use for missing nodes and samples on the data,
correlation structure, and network edge weight heat maps.
dryRun
logical; if TRUE, only the axes and labels will be
drawed.