Displaying 20 results from an estimated 700 matches similar to: "Predict Fanny Membership"
2009 Jun 29
0
Naive knn question
Dear list,
I have two dissimilarity matrices, one for a training data set which I then
clustered using PAM. The second is a diss matrix for a validation data set
(an independent field sample). I have been trying to use knn to distinguish
distances between the validation data set and the 6 mediods of the training
data defined by using PAM.
I continue to get error messages in regards to either the
2006 May 03
2
cannot use fanny in package cluster (PR#8830)
Full_Name: Guan-Hua Huang
Version: 2.0.1
OS: Linux
Submission from: (NULL) (140.113.114.123)
I install the package cluster by using install.packages("cluster"). After
install it, it runs fine for function clara, but it does not work for function
fanny. I did the following things:
library(cluster)
set.seed(21)
x <- rbind(cbind(rnorm(10, 0, 0.5), rnorm(10, 0, 0.5)),
2006 May 03
1
cannot use fanny in package cluster
Dear All,
My R version: 2.0.1 ; OS using: Linux. I install the package cluster by
using install.packages("cluster"). After install it, it runs fine for
function clara, but it does not work for function fanny. I did the following
things:
library(cluster)
set.seed(21)
x <- rbind(cbind(rnorm(10, 0, 0.5), rnorm(10, 0, 0.5)),cbind(rnorm(15, 5,
0.5), rnorm(15, 5, 0.5)),cbind(rnorm(
2005 May 30
2
"FANNY" function in R package "cluster"
Dear All,
I am attempting to use the FANNY fuzzy clustering function in R
(Kaufman & Rousseeuw, 1990), found in the "cluster" package. I have
run into a variety of difficulties; the two most crucial difficulties
are enumerated below.
1. Where is the 'm' parameter in FANNY?
In _Finding Groups in Data: An Introduction to Cluster Analysis_
(1990) by Kaufman & Rousseeuw,
2005 May 13
2
cluster results using fanny
Hi,
I am using fanny and I have estrange results. I am wondering if
someone out there can help me understand why this happens.
First of all in most of my tries, it gives me a result in which each
object has equal membership in all clusters. I have read that that
means "the clustering is entirely fuzzy". Looking at the graphics it
is really difficult to understand how objects with so
2003 Feb 28
1
Pam and Fanny vector length problems
I have "small" problem ...
with the cluster library each time I try to use
the "agnes","pam","fanny" functions with more than 20000 elements
I get the following error:
>Error in vector("double", length) : negative length vectors are not allowed
>In addition: Warning message:
>NAs introduced by coercion
But with the clara
2007 Mar 29
2
Fanny Clustering
? stato filtrato un testo allegato il cui set di caratteri non era
indicato...
Nome: non disponibile
Url: https://stat.ethz.ch/pipermail/r-help/attachments/20070329/5d6b2e57/attachment.pl
2007 May 18
1
Goodness-of-fit test for gamma distribution?
Hi all,
I am wondering if anyone has written (or knows of) a function that
will conduct a goodness-of-fit test for a gamma distribution. I am
especially interested in test statistics have some asymptotic
parametric distribution that is independent of sample size or values
of fitted parameters (e.g., a chi-squared distribution with some
fixed df), because I want to fit gamma distributions to
2007 Oct 23
0
MPI implementations of fanny or cmeans
I've done a little digging, but I haven't been able to find an MPI or
snow (or any other distributed processing) implementation of fanny
(from cluster) or cmeans.
Is anyone aware of some implementations or addons which I've missed?
[I know of doi://10.1007/978-3-540-71351-7; but that's not for R]
Don Armstrong
[Currently not subscribed; M-F-T: set accordingly.]
--
Certainly
2007 Jul 18
0
Ideal number of clusters using the Fanny algorithm
Hello,
Could someone please let me know the procedure for determining the 'best'
solution with regards to the number of clusters using the Fanny algorithm
for computing fuzzy clusters? The function requires a specification of the
number of clusters a priori, but I am interested in determining what number
of clusters would result in the ideal fit with the data. Any
help/advice/pointers to
2008 May 16
1
Dimensions of svd V matrix
Hi,
I'm trying to do PCA on a n by p wide matrix (n < p), and I'd like to
get more principal components than there are rows. However, svd() only
returns a V matrix of with n columns (instead of p) unless the argument
nv=p is set (prcomp calls svd without setting it). Moreover, the
eigenvalues returned are always min(n, p) instead of p, even if nv is set:
> x <-
2008 Apr 03
1
Lapack error in Design:::ols
Hi,
I'm trying to use Frank Harrell's Design:::ols function to do regression
of y (numeric) on the interaction of two factors (x1 and x2), but Lapack
throws an error:
> library(Design)
...
> load(url("http://www.csse.unimelb.edu.au/~gabraham/x"))
> ols(y ~ x1 * x2, data=x)
Error in chol2inv(fit$qr$qr) : 'size' cannot exceed nrow(x) = 20
> traceback()
2009 Nov 27
2
Symmetric Matrix classes
Hi,
I'd like to store large covariance matrices using Matrix classes.
dsyMatrix seems like the right one, but I want to specify just the
upper/lower triangle and diagonal and not have to instantiate a huge
n^2 vector just for the sake of having half of it ignored:
Dumb example:
M <- new("dsyMatrix", uplo="U", x=rnorm(1e4), Dim=as.integer(c(100, 100)))
diag(M) <- 1
2008 May 18
1
predict.prcomp: 'newdata' does not have the correct number of columns
Hi,
I'm doing PCA on wide matrices and I don't understand why calling
predict.prcomp on it throws an error:
> x1 <- matrix(rnorm(100), 5, 20)
> x2 <- matrix(rnorm(100), 5, 20)
> p <- prcomp(x1)
> predict(p, x2)
Error in predict.prcomp(p, x2) :
'newdata' does not have the correct number of columns
> dim(x2)
[1] 5 20
> dim(p$rotation)
[1] 20 5
2008 Aug 12
1
Conflict between octave3.0-headers and r-base-dev
Hi,
I'm using Ubuntu Hardy i386, and the R 2.7.1 Ubuntu packages from CRAN.
The CRAN r-base-dev package depends on refblas3-dev or atlas3-base-dev,
but octave3.0-headers depends on libblas-dev. The two blas packages seem
to conflict, so r-base-dev and octave3.0-headers can't be installed
together.
Is this a known issue?
Thanks,
Gad
$ sudo apt-get install octave3.0-headers
Reading
2010 May 26
2
cran2deb Packages.bz2 Hash Sum mismatch
Hi,
I'm using Ubuntu 9.10 amd64 with cran2deb packages (I know it's meant
for Debian, it's worked fine for me for many months).
Recently apt-get update has to started to complain:
...
Hit http://debian.cran.r-project.org testing/ Release
Get:1 http://debian.cran.r-project.org testing/ Packages [515kB]
Fetched 1B in 3s (0B/s)
W: Failed to fetch
2009 Mar 10
1
S4 generic masking S3 generic when using namespace
Hi,
I have two example packages, test1 and test2, where the only code in
them is:
setGeneric("predict", function(object, ...) standardGeneric("predict"))
(get them from http://www.cs.mu.oz.au/~gabraham/test1.tar and
http://www.cs.mu.oz.au/~gabraham/test2.tar)
The difference between them is that first does not have a namespace, and
loads fine. The second has a namespace
2008 Oct 09
2
Singular information matrix in lrm.fit
Hi R helpers,
I'm fitting large number of single factor logistic regression models
as a way to immediatly discard factor which are insignificant.
Everything works fine expect that for some factors I get error message
"Singular information matrix in lrm.fit" which breaks whole execution
loop... how to make LRM not to throw this error and simply skip
factors with singularity
2008 Nov 12
1
.Random.seed is double
Hi
I am experiencing a problem with the random number generator. When I call
any function that involve RNG such as "runif" or "sample" I get this error:
.Random.seed is not an integer vector but of type 'double'
I can't coerce the random seed and it's recommended not to alter it anyway.
Can anybody help me?
Thanks and kind regards,
Piero Visconti, PhD
2008 Dec 11
1
help with predict in stats4
Hi,
We're using stats4 for a logistic regression. The code is
chdreg.logit2 <- glm(chd ~ age + sex, family = binomial)
summary(chdreg.logit2)
oddsratios <- coef(chdreg.logit2)
exp(oddsratios)
# Calculate model predicted values
pred <- predict(chdreg.logit2,type="response")
The glm part runs fine, and up to now so has the predict function.
However, now we're