plotHapNet | R Documentation |
plotHapNet
plotHapNet(hapNet, size = "freq", scale = TRUE, scale.ratio = 1, cex = 0.8, col.link = 1, link.width = 1, show.mutation = 1, lwd = 1, pieCol = pieCol, pieData = hapGroup, addLegend = TRUE, legendPosition = "left", ...)
hapNet |
an object of class "haploNet". |
size |
a numeric vector giving the diameter of the circles representing the haplotypes: this is in the same unit than the links and eventually recycled. |
scale.ratio |
the ratio of the scale of the links representing the number of steps on the scale of the circles representing the haplotypes. It may be needed to give a value greater than one to avoid overlapping circles. |
cex |
character expansion factor relative to current par("cex"). Used for text, and provides the default for pt.cex. |
col.link |
a character vector specifying the colours of the links; eventually recycled. |
link.width |
a numeric vector giving the width of the links; eventually recycled. |
show.mutation |
an integer value: if 0, nothing is drawn on the links; if 1, the mutations are shown with small segments on the links; if 2, they are shown with small dots; if 3, the number of mutations are printed on the links. |
lwd |
a numeric vector giving the width of the links; eventually recycled. |
pieCol |
colors |
pieData |
a matrix used to draw pie charts for each haplotype; its number of rows must be equal to the number of haplotypes. |
addLegend |
a logical specifying whether to draw the legend, or a vector of length two giving the coordinates where to draw the legend; FALSE by default. If TRUE, the user is asked to click where to draw the legend. |
... |
pass to plot function |
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