mxy2.plot {OLIN} | R Documentation |

## Generation of MXY plots based on spot coordinates

### Description

This function produce a MXY plot with a colour bar.
In contrast to `mxy.plot`

, the plot is based on spot coordinates (instead on column and row
index as proxies for spot location).

### Usage

mxy2.plot(V,X,Y,Ngc,Ngr,Nsc,Nsr,color.lim=c(-1,1),xlab="X",ylab="Y",...)

### Arguments

`V` |
vector of real values typically logged ratios *M*. |

`X` |
vector of x coordinates of spot locations |

`Y` |
vector of y coordinates of spot locations |

`Ngc` |
number of columns for the grid matrix |

`Ngr` |
number of rows for the grid matrix |

`Nsc` |
number of columns for the spot matrix |

`Nsr` |
number of rows for the spot matrix |

`color.lim` |
limits of color range for MXY plot |

`xlab` |
label of x-axis of MXY plot |

`ylab` |
label of y-axis of MXY plot |

`...` |
Further optional graphical parameter for the `image` function generating the MXY plot |

### Details

The function `mxy2.plot`

can be used to plot the distribution of `V`

across
the array. As `mxy.plot`

, it mainly aims for the plotting of the distribution of
logged fold changes. It differs from `mxy.plot`

in the representation of spot location.
The function `mxy.plot`

uses the index of columns and rows as proxies for the spot location.
The gaps between the grid matrices (spotted by different pins) are, therefore, not reproduced
in the plot. A more accurate spatial plot is produced by `mxy2.plot`

, which
is based on the coordinates of the first column and first raw of the array. Assuming a regular rectangular print layout,
gaps and the edges of the array are shown.

### Author(s)

Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)

### See Also

`mxy.plot`

, `v2m`

, `m2v`

, `fgbg.visu`

, `image`

### Examples

# LOADING DATA
data(sw)
data(sw.xy)
# PLOTTING
mxy2.plot(maM(sw)[,1],X=sw.xy$X[,1],Y=sw.xy$Y[,1], Ngc=maNgc(sw),Ngr=maNgr(sw),
Nsc=maNsc(sw),Nsr=maNsr(sw))

[Package

*OLIN* version 1.3.2

Index]