Generation of MXY plots of absolute values

Description

This function produce a MXY plot of absolute values of M including a colour bar.

Usage

mxy.abs.plot(V,Ngc,Ngr,Nsc,Nsr,color.lim,color="red",xlab="Columns",ylab="Rows",...) 

Arguments

Details

The function mxy.abs.plot is similar to function mxy.plot. Details can therefore be found at mxy.plot. Two differences, however, exist: First, mxy.abs.plot plots the absolute value of V and second, “red” (default) or “green” can be chosen as colour of plotting. Hence, mxy.abs.plot facilitates the inspection of spatial artifacts in single fluorescence channels.

Author(s)

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

See Also

v2m, m2v, colorbar.mxy.abs, fgbg.visu, image

Examples

# LOADING DATA
data(sw)
# PLOTTING OF ABSOLUTE LOGGED FOLD-CHANGES
mxy.plot(abs(maM(sw)[,1]),Ngc=maNgc(sw),Ngr=maNgr(sw),Nsc=maNsc(sw),Nsr=maNsr(sw))

# PLOTTING SPATIAL DISTRIBUTION OF SINGLE-CHANNEL INTENSITIES
mxy.abs.plot(maRf(sw)[,1],color.lim=c(0,10000),Ngc=maNgc(sw),Ngr=maNgr(sw),
             Nsc=maNsc(sw),Nsr=maNsr(sw))
mxy.abs.plot(maGf(sw)[,1],color.lim=c(0,10000),color="green",Ngc=maNgc(sw),Ngr=maNgr(sw),
             Nsc=maNsc(sw),Nsr=maNsr(sw))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(OLIN)
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
Loading required package: marray
Loading required package: limma
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/OLIN/mxy.abs.plot.Rd_%03d_medium.png", width=480, height=480)
> ### Name: mxy.abs.plot
> ### Title: Generation of MXY plots of absolute values
> ### Aliases: mxy.abs.plot
> ### Keywords: hplot
> 
> ### ** Examples
> 
> # LOADING DATA
> data(sw)
> # PLOTTING OF ABSOLUTE LOGGED FOLD-CHANGES
> mxy.plot(abs(maM(sw)[,1]),Ngc=maNgc(sw),Ngr=maNgr(sw),Nsc=maNsc(sw),Nsr=maNsr(sw))
> 
> # PLOTTING SPATIAL DISTRIBUTION OF SINGLE-CHANNEL INTENSITIES
> mxy.abs.plot(maRf(sw)[,1],color.lim=c(0,10000),Ngc=maNgc(sw),Ngr=maNgr(sw),
+              Nsc=maNsc(sw),Nsr=maNsr(sw))
> mxy.abs.plot(maGf(sw)[,1],color.lim=c(0,10000),color="green",Ngc=maNgc(sw),Ngr=maNgr(sw),
+              Nsc=maNsc(sw),Nsr=maNsr(sw))
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>