Displaying 20 results from an estimated 700 matches similar to: "Kruskal's MDS results"
2011 Apr 15
3
Rsquared for anova
I calculate an anova test in the following way:
expdata<-read.table("/home/dorien/UA/meta-music/optimuse/optimuse1-build-desktop/results/results_processedCP",
header=TRUE)
2011 Apr 02
3
Plotting MDS (multidimensional scaling)
Hi,
I just encountered what I thought was strange behavior in MDS. However, it
turned out that the mistake was mine. The lesson learned from my mistake is
that one should plot on a square pane when plotting results of an MDS. Not
doing so can be very misleading. Follow the example of an equilateral
triangle below to see what I mean. I hope this helps others to avoid this
kind of headache.
2008 Jul 05
2
p-value for Nonmetric Multidimentional Scaling?
Dear R-helpers,
I am running metaMDS in the vegan package, which uses isoMDS in MASS, to perform Nonmetric Multidimentional Scaling (NMDS).
I have seen some authors report a p-value for the NMDS ordination based on randomization of the dataset. As I understand it this is meant to compare the stress in your dataset to multiple runs of randomized data.
I do not see a way to perform such a test in
2010 May 25
2
Calculation time of isoMDS and the optimal number of dimensions
Dear all,
I'm running a set of nonparametric MDS analyses, using a wrapper for isoMDS,
on a 800x800 distance matrix. I noticed that setting the parameter k to
larger numbers seriously increases the calculation time. Actually, with k=10
it calculates already longer than for k=2 and k=5 together. It's now
calculating for 6 hours, and counting...
There is quite a difference between the
2008 Feb 20
1
Stress with MDS
Hi,
I am looking for the best multidimensional configuration for my data (47*47
distance matrix).
I ve tried classical metric (cmdscale) and non metric MDS (isoMDS, nmds)
but it is now difficult to choose the best solution because of the
uncertainties in the definitions of the "stress" function.
So, same problem, several questions :
1. Statistical consideration : With
2007 Feb 13
4
isoMDS vs. other non-metric non-R routines
Dear useRs,
last week I asked you about a problem related to isoMDS. It turned
out that in my case isoMDS was trapped. Nonetheless, I still have
some problems with other data sets. Therefore I would like to know if
anyone here has experience with how well isoMDS performs in
comparison to other non-metric MDS routines, like Minissa.
I have the feeling that for large data sets with a high
2006 Jun 15
3
MDS with missing data?
Hello
I will be applying MDS (actually Isomap) to make a
psychological
"concept map" of the similarities between N concepts.
I would like to scale to a large number of concepts,
however, the
resulting N*(N-1) pairwise similarities is prohibitive
for a user survey.
I'm thinking of giving people random subsets of the
pairwise
similarities.
Does anyone have recommendations for this
2004 Mar 26
2
Fwd: MDS problems [ajtee@ajtee.uklinux.net]
Hi all,
I'm trying to perform an MDS of some data that I have. When I use
cmdscale everything is fine and I get some interesting results however,
the tends to be low.
What I wnat to do is compare this with the Non-Metric MDS using isoMDS
or sammon. However, when I try using these I get the following message.
Error in isoMDS(x.dist) : zero or negative distance between objects 2
and 4
2005 Mar 08
1
Multidimensional Scaling (MDS) in R
Hi;
I am working with the similarity matrix below and I would like to plot
a two-dimensional MDS solution such as each point in the plot has a
label.
This is what I did:
data <- read.table('c:/multivariate/mds/colour.txt',header=FALSE)
similarity <- as.dist(data)
distance <- 1-similarity
result.nmds <- nmds(distance)
plot(result.nmds)
(nmds and plot.nmds as defined at
2010 Jan 06
1
math function - MDS method
Hi,
I need math function which is used in: isoMDS, Sammon and metaMDS method.
Anybody know where I may find it? Any manual or webside?
I would be very happy
Thanks a lot !
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2005 Jun 28
2
enhanced MDS
Hi again
Sorry, in looking again at sammon and isoMDS I see that they seem to do
exactly what I want, except that they are non-metric, which means, as I
understand it, that they relate the rank orders of the variables rather than
the actual distances.
Could I use these non-metric MDS packages even if my distances are metric?
Thanks
Karen
--
Karen Kotschy
Centre for Water in the Environment
2008 Feb 06
0
kruskal's MONANOVA algorithm
I am trying to obtain the Kruskal (1964) secondary least-squares monotonic
transformation of a rank variable given 4 categorical variables in order to
obtain optimal transformation for regression. The academic problem assigned
is to compare R, SPSS (Conjoint Analysis), and SAS' proc transreg in speed
and accuracy. Currently, SAS and SPSS are giving similar results, but R's
are quite
2005 Mar 21
1
How to do such MDS in R
i know cmdscale and isoMDS inR can do classical and non-metric MDS.but i want to konw if there is packages can carry on "individual differences scaling" and "multidimensional analysis og preference"?both method are important one,but i can not find any clue on how to do it using R.
anyone can help?
thank you!
2002 Apr 19
4
Multidimensional scaling
A student of mine wants to use R to do some nonmetric multidimensional
scaling. According to the R FAQ, there's a package called pcurve that
computes multidimensional scaling solutions, but I was not able to locate
it the contrib page (I am a Windows user with R version 1.4.1). Can
anyone tell me whether it is possible to do nonmetric multidimensional
scaling with R, and if so, how?
John
2007 Nov 27
2
rearrange data: one line per subject, one column per condition
Dear R-list,
Is there a way to convert the typical long R data-format to a 1-line per subject format?
I have data formatted as:
Group subj condition variable
1 1 1 746.36625
2 2 1 1076.152857
1 3 1 1076.152857
2 4 1 657.4263636
1 5 1 854.1266667
2 6 1 1191.676154
1 7 1 1028.175385
1 1 2 46.36625
2 2 2 76.152857
1 3 2 76.152857
2 4 2 57.4263636
1 5 2 54.1266667
2 6 2 191.676154
1 7 2 028.175385
2007 May 30
2
Smoothing a path in 2D
Hello,
I'm currently trying to find a method to interpolate or smooth data that
represent a trajectory in space.
For example, I have an ordered (=time) set of (x,y) tuples which
constitute a path in a 2D space.
Is there a way using R to interpolate between these points in a way
similar to spline interpolation so that I get a smooth path in space?
Greetings,
Dieter
--
Dieter Vanderelst
2007 Jul 17
2
Combine R2HTML and Rcmd BATCH?
Hi All,
I have an R script that spawns output in the form of an HTML page. This
is done by the R2HTML package.
Now I want to run the same script using Rcmd BATCH. However, it seems
that it is not possible to use R2HTML in this case.
My script ends with this error message:
#########################
Error in dev.print(png, file = AbsGraphFileName, width = Width, height =
Height, :
can only
2007 Oct 31
2
ylim in barplot2 function?
Hi list,
I'm using barplot2 form the gplots package to plot a few numbers (I want to add SD bars later).
However, I would like the y-axis not to start from 0 but 500. When I add the parameters YLIM, something goes wrong. The graph is not 'cut off' at 500. Instead the bars seems to sink trough the bottom of the graph.
Because its a little hard to explain, here is a self-containing
2005 Jun 22
2
PCA and MDS
Dear All,
I am not familar with R. I want to use PCA (principal components
analysis) and MDS (multidimensional scaling). Can someone tell me
which R package I should use for PCA and MDS? I appreciate your help
in advance.
Ray
2007 Jun 21
1
MDS size limitations
What are the limitations on size of matrix for MDS functions?
steve
--
Steve Antos
Priva-Technologies
847-640-9020 x3114
cell (540)409-1231
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