From: Uwe Ligges <ligges_at_statistik.uni-dortmund.de>

Date: Sun 29 May 2005 - 03:58:18 EST

Date: Sun 29 May 2005 - 03:58:18 EST

Aleš Žiberna wrote:

> Hello!

*>
**> I have the following problem.
**>
**> I would like to plot the hclust object "hcd" (bellow, at the end of the
**> mail) with ticks at seq(0.05,0.25,by=0.05). I tried using the code
**> plot(hcd)
**> and
**> plot(hcd,axes=FALSE)
**> axis(2,seq(0.05,0.25,by=0.05))
**>
**> In both cases, the resoult is the same, ticks at 0.05 and 0.25 are not
**> printed. I tried changing the ylim argumet in plot, however I got a
**> warning "parameter "ylim" couldn't be set in high-level plot() function".
**>
**> I would like to force those two ticks. Can this be done with axis or
**> plot, or should I use "lines"?
*

Not easy with the plot method for a hclust object, because 0.05 and 0.25 are getting clipped, because they are out od the "usr" coordinated of the plot.

Of course you could hack plot.hclust (in Namespace stats) by modifying .../R/library/src/stats/R/hclust.R as follows (in order to provide a proper ylim argument):

diff hclust.R-orig hclust.R

91c91,92

< sub = NULL, xlab = NULL, ylab = "Height", ...)

--- > sub = NULL, xlab = NULL, ylab = "Height", > ylim = NULL, ...) 116c117,120 < .Internal(dend.window(n, merge, height, hang, labels, ...)) --- > height2 <- height > if(!is.null(ylim)) > height2 <- c(range(ylim), rep(ylim[1], length(height) - 2)) > .Internal(dend.window(n, merge, height2, hang, labels, ...)) Note that this quick hack is a *dirty* solution. Uwe LiggesReceived on Sun May 29 04:02:57 2005

> Thanks in advance for any suggestions!

> Aleš Žiberna>>> "hcd" <-> structure(list(merge = structure(as.integer(c(-4, -5, -1, -7,> -6, -10, -3, -12, -8, -2, 8, 1, -9, -11, 2, 3, -13, 4, 6, 5,> 7, 9, 10, 11)), .Dim = as.integer(c(12, 2))), height => c(0.0906288626438465,> 0.10278145998519, 0.114885217561497, 0.127812745765521, 0.132377986666522,> 0.168594637784091, 0.177187802444346, 0.209803430657638, 0.210361529934791,> 0.218946973173863, 0.234000873708654, 0.235702383243089), order => as.integer(c(4,> 9, 12, 6, 13, 2, 8, 3, 10, 7, 1, 5, 11)), labels = NULL, method = "single",> call = quote(hclust(d = d, method = "single")), dist.method = NULL),> .Names = c("merge",> "height", "order", "labels", "method", "call", "dist.method"), class => "hclust")>> ______________________________________________> R-help@stat.math.ethz.ch mailing list> https://stat.ethz.ch/mailman/listinfo/r-help> PLEASE do read the posting guide!> http://www.R-project.org/posting-guide.html

______________________________________________ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html

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