plot.gmdp: Plot function for class gmdp

In GMD: Generalized Minimum Distance of distributions

Description

Plot Function for Class gmdp

Usage

## S3 method for class 'gmdp'
plot(x, labels = NULL, colors = NULL, main,
  ylab = "Fraction", xlab = "Position", xlim = NULL, type = NULL,
  if.text.gmd = TRUE, if.text.gap = TRUE, ...)

Arguments

x	an object of class gmdp.
labels	a string vector of the same length of x$labels, giving the names of the numeric vectors in x.
colors	the colors of the discrete distributions. See help("plot.mhist", package="GMD").
main	an overall title for the plot.
ylab	a title for the y axis. See help("plot.mhist", package="GMD").
xlab	a title for the x axis. See help("plot.mhist", package="GMD").
xlim	numeric vectors of length 2, giving the x coordinates ranges.
type	type of plot, as in help("plot", package="graphics").
if.text.gmd	logical, indicating whether GM-Distance is reported in the subtitle.
if.text.gap	logical, indicating whether gap is reported in the subtitle.
...	arguments to be passed to methods. See help("plot.mhist", package="GMD").

Details

Plot Function for Class gmdp

References

See help(GMD)

See Also

gmdp

Examples

require("GMD") # load library
data(cage)     # load data

## measure pairwise distance
x <- gmdp(cage[["Pfkfb3 (T02R00AEC2D8)"]],cage[["Csf1 (T03R0672174D)"]])
print(x)                     # print a brief version by default
print(x, mode="full")  # print a full version by default

## show alignment
plot(x,labels=c("Pfkfb3","Csf1"),beside=FALSE)

## show another alignment
plot(gmdp(cage[["Hig1 (T09R0743763C)"]],cage[["Cd72 (T04R028B8BC9)"]]),
     labels=c("Hig1 (T09R0743763C)","Cd72 (T04R028B8BC9)"),
     beside=FALSE)

GMD documentation built on May 29, 2017, 10:41 a.m.