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method default for hclust function
4 messages · capricy gao, Eliza Botto, Peter Langfelder +1 more
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On Thu, Dec 12, 2013 at 3:09 PM, capricy gao <capricyg at yahoo.com> wrote:
I could not figure out what was the default when I ran hclust() without specifying the method.
According to help("hclust"), the default method is complete linkage.
HTH,
Peter
I think the OP was asking about the agglomeration method in hclust(), not the distance measure in dist(). And the default in dist() is not absolute distance which is not an option, but Euclidean distance:
dist(cbind(v, v))
1 2 3 4 5 2 1.414214 3 2.828427 1.414214 4 4.242641 2.828427 1.414214 5 5.656854 4.242641 2.828427 1.414214 6 7.071068 5.656854 4.242641 2.828427 1.414214 For a single vector (column) such as v <- 1:6, Euclidean, Manhattan, Maximum, and Minkowski will all give the same result. ------------------------------------- David L Carlson Department of Anthropology Texas A&M University College Station, TX 77840-4352 -----Original Message----- From: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org] On Behalf Of eliza botto Sent: Thursday, December 12, 2013 5:15 PM To: capricy gao; r-help at r-project.org Subject: Re: [R] method default for hclust function Absolute distance is the default distance in hclust. v<-c(1,2,3,4,5,6) dist(v) 2 1 3 2 1 4 3 2 1 5 4 3 2 1 6 5 4 3 2 1 Eliza
Date: Thu, 12 Dec 2013 15:09:19 -0800 From: capricyg at yahoo.com To: r-help at r-project.org Subject: [R] method default for hclust function I could not figure out what was the default when I ran
hclust() without specifying the method.
For example: I just have a code like: hclust(dist(data)) Any input would be appreciated:) [[alternative HTML version deleted]]
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code. ______________________________________________ R-help at 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.