R: Plot function for class gmdp

plot.gmdp {GMD} | R Documentation

## Plot function for class gmdp

### 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)

[Package GMD version 0.3.3 Index]