| sigxy.plot2 {OLIN} | R Documentation |
This function produces a 2D-plot visualizing the significance of spatial bias.
sigxy.plot2(object,Sp,Sn,color.lim=c(-3,3),...)
object |
object of class marrayRaw or marrayNorm |
Sp |
vector of false discovery rates or p-values for positive deviation of
median/mean of M
as produced by fdrspatial or p.spatial |
Sn |
vector of false discovery rate or p-values for negative deviation of median/mean of M
as produced by fdrspatial or p.spatial |
color.lim |
limits of color range for plotting vector corresponding to log10(pS) and log10(nS) |
... |
Further optional graphical parameter for the image function generating the MXY plot |
The function sigxy.plot2 differs from sigxy.plot in its input arguments.
The functionality is the same. For details, see sigxy.plot.
This function will be merged with sigxy.plot in future versions.
Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)
colorbar.sig, sigxy.plot,
\code{sigxy.plot},fdr.spatial2, p.spatial2, image
# To run these examples, "un-comment" them! # # LOADING DATA # data(sw) # CALCULATION OF SIGNIFICANCE OF SPOT NEIGHBOURHOODS # For this illustration, N was chosen rather small. For "real" analysis, it should be larger. # FDR <- fdr.spatial2(sw,delta=2,N=10,av="median",edgeNA=TRUE) # # SIGNIFICANCE PLOTS OF ARRAY 1 # sigxy.plot2(sw[,1],FDR$FDRp[[1]],FDR$FDRn[[1]],color.lim=c(-5,5),main="FDR") # SIGNIFICANCE PLOTS OF ARRAY 3 # sigxy.plot2(sw[,3],FDR$FDRp[[3]],FDR$FDRn[[3]],color.lim=c(-5,5),main="FDR") #