[R] figure-definition and heatmap question
Antje
niederlein-rstat at yahoo.de
Fri Aug 24 09:17:56 CEST 2007
There is no one who could help me with this?
Antje schrieb:
> Hello,
>
> I have two questions. I'd like to visualize data with a heatmap and I have the
> following testcase:
>
> x <- rnorm(256)
> nx <- x + abs(min(x))
> nnx <- 255/max(nx) * nx
> x <- matrix(nnx, 16, 16)
> rownames(x) <- c("A","B","C","D","E","F","G","I","H","J","K","L","M","N","O","P")
> par(fin=c(8.0,8.0))
> cp <- colorRampPalette(c("white","springgreen","darkgreen"),space="Lab")
> heatmap(x, Rowv = NA, Colv = NA, scale="none", col=cp(200))
>
> I defined the figure region to make sure that each position is a square. But
> with these settings I get the following output (though it looks nice):
> > x <- rnorm(256)
> > nx <- x + abs(min(x))
> > nnx <- 255/max(nx) * nx
> > x <- matrix(nnx, 16, 16)
> > rownames(x) <-
> c("A","B","C","D","E","F","G","I","H","J","K","L","M","N","O","P")
> > par(fin=c(8.0,8.0))
> > cp <- colorRampPalette(c("white","springgreen","darkgreen"),space="Lab")
> > heatmap(x, Rowv = NA, Colv = NA, scale="none", col=cp(200))
> Fehler in par(op) : ungültiger Wert für den Grafikparameter "fig" spezifiziert
> > par(fin=c(8.0,8.0))
> > cp <- colorRampPalette(c("white","springgreen","darkgreen"),space="Lab")
> > heatmap(x, Rowv = NA, Colv = NA, scale="none", col=cp(200))
> Fehler in par(op) : ungültiger Wert für den Grafikparameter "fig" spezifiziert
> > par()$fig
> [1] 7.267443e-04 1.305448e-02 -2.862294e-17 9.876543e-01
> > par()$fin
> [1] 0.08834875 7.06790021
>
> Why do I get this error? Why does the parameters have these strange values
> (though I set the fin parameter before...)
>
> And another question concerning the heatmap: May I force the funtion to plot A1
> at the upper left corner instead of the lower left?
>
> I'll be glad about any idea how to solve these problems...
>
> Ciao,
> Antje
>
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