Displaying 20 results from an estimated 2000 matches similar to: "cauculating dissimilarities in R"
2007 Mar 02
0
Dice dissimilarity output and 'phylo' function in R
Dear All,
I get some problems using the 'phylo' and
dissimilarity functions in R. I converted an output
from 'hclust' into an order of phylo so as to be able
to use the 'consensus' function on it. Each time I
submit the consensus codes, my computer hangs. When I
tried to see what the contents of the object converted
into order phylo is, I get the message
2010 Dec 28
3
Jaccard dissimilarity matrix for PCA
Hi
I have a large dataset, containing a wide range of binary variables.
I would like first of all to compute a jaccard matrix, then do a PCA on this
matrix, so that I finally can do a hierarchical clustering on the principal
components.
My problem is, that I don't know how to compute the jaccard dissimilarity
matrix in R? Which package to use, and so on...
Can anybody help me?
Alternatively
2010 Nov 06
0
variable type assignment in daisy
Dear Rhelp,
I did a daisy on 5 lifestyle variables, 3 of which were nominal and 2 were ordinal and assigned types “nominal” and “ordinal” for the variables, respectively. I got an output indicating their types as “I” for interval(?). Doing it on the Rdata example “flower” gave the same types in the output as the types they were assigned to. Why is this so? Below are the codes and outputs.
2005 May 30
2
How to access to sum of dissimilarities in CLARA
Dear All ,
Since dissimilarity is one of quality measures in clustering , I'm trying to access to the sum of dissimilarity as a whole measure. But after running my data using CLARA I obtain :
1128 dissimilarities, summarized :
Min. 1st Qu. Median Mean 3rd Qu. Max.
0.033155 0.934630 2.257000 2.941600 4.876600 8.943700
But I can not find the sum of dissimilarity.How can i
2007 Aug 14
0
Comparing long species lists via Sorensons dissimilarity
I have 4 very large species lists and I would like to compare them.
I have the following results from running Sorenson’s dissimilarity tests:
Norfolk Fens compared to Suffolk Coastal Fens: QS=0.583961142689298
Norfolk Fens compared to Breckland Edge Fens: QS=0.714896020281379
Norfolk Fens compared to Other Fens:
2009 Mar 29
1
[cluster package question] What is the "sum of the dissimilarities" in the pam command ?
Hello Martin Maechler and All,
A simple question (I hope):
How can I compute the "sum of the dissimilarities" that appears in the pam
command (from the cluster package) ?
Is it the "manhattan" distance (such as the one implemented by "dist") ?
I am asking since I am running clustering on a dataset. I found 7 medoids
with the pam command, and from it I have the
2002 Dec 13
1
clustering dissimilarities
Hello. I know my dissimilarity matrix but not my original data. Is there any way i could use the clustering function Mclust or EMclust with this dissimilarity matrix? or at least some equivalent of these functions? As this is model based clustering i dont know if it is actually possible to do it without the original data
thanks in advance for your help
[[alternate HTML version deleted]]
2010 Jun 28
2
Replacing real inbox by virtual inbox
Hello,
I'm using dovecot 1.2.11 with virtual folders. I'd like to
replace my real INBOX by a virtual one but I have several questions :
*
will my mail still be delivered to my real INBOX?
* will I be able to
access my real INBOX, for example using a virtual folder reliyng on INBOX
* and, how to do it.
Here's my problem, if I look to the wiki page [1], I
don't really
2009 Mar 25
1
how to calcualte Jaccard Coefficient
Does anyone have a good method for calculating Jaccard coefficients now that the dissimilarity() function is no longer an option?
Wen Gu
John Jay College of Criminal Justice445 West 59 StreetNew York, NY 10029
wgu@gc.cuny.edu
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2004 Jun 29
1
PAM clustering: using my own dissimilarity matrix
Hello,
I would like to use my own dissimilarity matrix in a PAM clustering with
method "pam" (cluster package) instead of a dissimilarity matrix created
by daisy.
I read data from a file containing the dissimilarity values using
"read.csv". This creates a matrix (alternatively: an array or vector)
which is not accepted by "pam": A call
2012 Jun 25
1
Arules - predict function issues - subscript out of bounds
Hi,
I'm doing a Market Basket Analysis in which I have a list of transaction
id's in column 2 and transactions(product names) in column 1. I read this
into a transaction file using a
txn<-read.transaction(file="data.csv",format='single', rm.duplicates=F,
cols=c(1,2))
If I want to use the apriori algorithm everything seems to be running fine.
However it is when I want
2009 Feb 27
0
[HOWTO] Priorize one destination over another on a link
Hello List,
The list sorted my problem thus I shall contribute back ;-)
PROBLEM:
========
I am posting this example, where I have a "Reunion" link of 30 channels. If
i send all the traffic (proper + mobile) on the link, the less profitable
proper traffic fills the link and leaves no channel for more profitable
mobile traffic. Some kind of priority is needed to always leave space for
2013 Feb 08
1
vegdist Error en double(N * (N - 1)/2) : tama?o del vector especificado es muy grande
---------- Forwarded message ----------
From: <r-help-owner@r-project.org>
Date: 2013/2/8
Subject: vegdist Error en double(N * (N - 1)/2) : tama?o del vector
especificado es muy grande
To: caro.bello58@gmail.com
Message rejected by filter rule match
---------- Mensaje reenviado ----------
From: caro bello <caro.bello58@gmail.com>
To: r-help@r-project.org
Cc:
Date: Fri, 8 Feb 2013
2010 Aug 09
1
Need help on heatmap, K-means and hhierarchical clustering methods
Hi folks,
I am new to the R software. I have been going through different materials to
know more about R.
I have the R software installed on my windows machine.I would like to know
the R source code for the following problems on iris flower data set.
I need to do the cluster analysis project with the iris data set. The goal
is to cluster the flowers
according to their Sepal.Length, Sepal.Width,
2009 Feb 26
3
call-limit on a per destination basis
Hello,
I use asterisk to to IAX2 trunking between London POP & Reunion Island pop.
I would like to know if it's possible to do a kind of call-limit (i.e.
restrict to XX) channels but on a per dialcode and / or destination basis.
For example:
[trunk]
; reunion proper, i want to send no more than 24 channels
exten => _0262XXXXXX,1,Dial(IAX2/mytrunk/${EXTEN})
; reunion mobile, i want
2006 Dec 04
0
lint_to_remote for image
I have some simple code so that when you click on a thumbnail,
it''s supposed to display the image enlarged in the enlargement area.
The page looks right, but when you click on a thumb nothing happens, it
just moves up the page. Why is the href=# happening ? The generated
html comes after the sample rhtml
<%= image_tag @enlargement, :width => "279", :height =>
2012 Dec 06
1
clustering of binary data
Good morning,
I am analyzing a dataset composed by 364 subjects and 13 binary variables
(0,1 = absence,presence).
I am testing possible association (co-presence) of my variables. To do
this, I was trying with cluster analysis.
My main interest is to check for the significance of the obtained clusters.
First, I tried with the pvclust() function, by using method.hclust="ward"
and
2007 Jun 20
1
Dissimilarity
Hello Stephen,
I am happy that you help me. Thanks a million.
It is a good feeling that you confirm my assumption that dsvdis is
not able to deal with missing data, because it says me that I am not
completely incapable.
Okay now I have the problem what to do.
I used this function ´cause there is an option to weight columns
differently what I haven´t found in other functions.
But now I
2013 Dec 08
3
Why daisy() in cluster library failed to exclude NA when computing dissimilarity
Hi,
According to daisy function from cluster documentation, it can compute
dissimilarity when NA (missing) value(s) is present.
http://stat.ethz.ch/R-manual/R-devel/library/cluster/html/daisy.html
But why when I tried this code
library(cluster)
x <- c(1.115,NA,NA,0.971,NA)
y <- c(NA,1.006,NA,NA,0.645)
df <- as.data.frame(rbind(x,y))
daisy(df,metric="gower")
It gave this
2005 May 17
1
Vuong test
Hi,
I have two questions. First, I'd like to compare a ZINB model to a negativ
binomial model with the Vuong test, but I can't find how to performe it from
the zicount package. Does a programm exist to do it ?
Second, I'd like to know in which cases we have to use a double hurdle model
instead of a zero inflated model.
Many thanks,
St??phanie Payet
REES France
R??seau