ng Zhang
Ph.D.Candidate
State Key Laboratory for Vegetation and Environmental Change,
Institute of Botany, The Chinese Academy of Sciences
Nanxincun 20,Xiangshan, Beijing 100093
E-mails:
zhan...@ibcas.ac.cn
jinlongzhan...@gmail.com
发件人： Yong Zhang
发送时间： 2010-12-10 20:29:43
收件人： r-si
Package vegan is your friend. See vegdist function (among others).
Cheers,
Roman
On Fri, Dec 10, 2010 at 1:28 PM, Yong Zhang <2010202...@njau.edu.cn> wrote:
>
> Hello all,
>
> If I have 15 sites with the species composition data, how should I get the
> dissimilarity matrix of those sites? Whi
Hello all,
If I have 15 sites with the species composition data, how should I get the
dissimilarity matrix of those sites? Which function or package should I use? I
am green,
sorry for any inconvenience that I brought to you.
Any of your hint or suggestion will be greatly appreciated.
All t
Well, it was not only a little sloppy, but a little late. Reading
further I saw others had made the same suggestion a while ago.
Nonetheless, that will remind me to paste my emails into R and check.
Thanks François
On 12/09/2010 03:34 PM, francois Guilhaumon wrote:
Dear all,
I would like to
Dear all,
I would like to point out three small mistakes in Dave's code, which of
course are certainly typos.
If one wants to not get only NAs in the result vector, one should
specify na.rm=TRUE in the apply statement, furthermore I guess that
the mean function has to be applied to 'demodis2' and
Burak,
I think your question is simpler than the suggestions of NMDS. One
approach, let's say you dissimilarity matrix is called demodis
> demodis2 <- as.matrix(demodis) # make a full matrix copy
> is.na(diag(demodis2)) <- TRUE# ignore the dissimilarity of a
"'r-sig-ecology@r-project.org'"
> r-sig-ecology-bou
> n...@r-project.or cc
> g
>
r-sig-ecology-bou
> n...@r-project.or cc
> g
> Subject
> [R-sig-eco] Dissimilarity ranking
> 11/23/2010 03:09
> P
Subject
[R-sig-eco] Dissimilarity ranking
11/23/2010 03:09
Maybe what you're looking for is ?vegan::metaMDS
Cheers,
Roman
On Tue, Nov 23, 2010 at 9:09 PM, Pekin, Burak K wrote:
> Hello, I want to rank the dissimilarity of sites based on their species
> composition. For example, I would like to be able to say that site A is less
> similar in compositi
Hello, I want to rank the dissimilarity of sites based on their species
composition. For example, I would like to be able to say that site A is less
similar in composition to the other sites than site B is similar to the other
sites. I could do a cluster analysis and look at which sites are less
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