I do not want to use the b word, but can anyone who also subscribes to the r-developer list forward my observation regarding heatmap? I am pretty confident that the behaviour of heatmap in R 3.0.1 is not that one intended.
On 31 July 2013 14:03, Witold E Wolski <wewol...@gmail.com> wrote: > Would anyone of the more experienced r-users explain to me the > behaviour of the scale parameter in the heatmap function. > > different options for scale (R 3.0.1) do change only the colors but do > not affect the dendrograms. Please see for yourself executing the > following code: > > d <- matrix(rnorm(100),nrow=20) > stats::heatmap(d) > X11() > heatmap(d,scale="column") > X11() > heatmap(d,scale="row") > X11() > heatmap(d,scale="none") > > In all four above cases the dendrograms look exactly the same > However, scaling clearly affects clustering. see: > > d <- scale(d) > heatmap(d,scale="none") > > > best regards > > R version 3.0.1 (2013-05-16) -- "Good Sport" > ciao > > -- > Witold Eryk Wolski > > > -- > Witold Eryk Wolski -- Witold Eryk Wolski ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
