plotHapNet: plotHapNet

In ZhangRenL/quickHapR: R Packages for Gene Haplotype Analysis

plotHapNet

Description

plotHapNet

Usage

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", ...)

Arguments

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

ZhangRenL/quickHapR documentation built on June 17, 2022, 12:04 a.m.