Displaying 20 results from an estimated 1000 matches similar to: "Bootstrapping PCA + Standard Error Scree"
2010 May 02
2
Scree diagram,
hello,
I've two questions today.
1) I'm trying to do a scree diagram, I did a Google for a specific command I
could used to do so. All I could find is a screeplot. Are they the same
command?
2) what command can I used to present a PC scores, eigenvectors of the PC
scores, and component correlations?
thanks!
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2012 Mar 15
0
PCA R
Hello can anyone help,
I have been running the following script to obtain a PCA plot but the end result is rather disappointing as the points are very very small and there are no titles etc
geochemdata<-read.csv(file.choose(),header=TRUE)
names(geochemdata)
library(vegan)
bstick<-function(n, tot.var=1) rev(cumsum(tot.var/n:1)/n)
geopca<-rda(geochemdata, scale=TRUE)
geopca
2005 Jan 04
1
scree plot
Hi!
Is there an easy way to add to the scree-plot labels to each value pertaining to the cumulative proportion of explained variance?
Thanks and a happy new year
Anne
----------------------------------------------------
Anne Piotet
Tel: +41 79 359 83 32 (mobile)
Email: anne.piotet@m-td.com
---------------------------------------------------
M-TD Modelling and Technology Development
PSE-C
2003 May 06
2
R vs SPSS output for princomp
Hi,
I am using R to do a principal components analysis for a class
which is generally using SPSS - so some of my question relates to
SPSS output (and this might not be the right place). I have
scoured the mailing list and the web but can't get a feel for this.
It is annoying because they will be marking to the SPSS output.
Basically I'm getting different values for the component
2008 Sep 09
4
PCA and % variance explained
After doing a PCA using princomp, how do you view how much each component
contributes to variance in the dataset. I'm still quite new to the theory of
PCA - I have a little idea about eigenvectors and eigenvalues (these
determine the variance explained?). Are the eigenvalues related to loadings
in R?
Thanks,
Paul
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2013 Mar 21
1
values for the scree plot (package psych)
Hello,
I am using function princomp from the package psych.
I have my principle component object mypc:
mypc <- princomp(covmat=mycor)
plot(mypc) # shows me a screeplot
Question: how could I actually see the values displayed in the screeplot. I
don't mean on the graph - I just want to know the actual value for each
component (e.g., 10, 3.2, 1.8, etc.)
I need to know how much variance,
1998 Aug 26
0
prcomp & princomp - revised
My previous post about prcomp and princomp was done in some haste as I had long
ago indicated to Kurt that I would try to have this ready for the June release,
and it appeared that I would miss yet another release. I also need to get it out
before it becomes hopelessly buried by other work.
Brian Ripley kindly pointed out some errors, and also pointed out that I was
suggesting replacing some
How to use PC1 of PCA and dim1 of MCA as a predictor in logistic regression model for data reduction
2011 Aug 17
4
How to use PC1 of PCA and dim1 of MCA as a predictor in logistic regression model for data reduction
Hi all,
I'm trying to do model reduction for logistic regression. I have 13
predictor (4 continuous variables and 9 binary variables). Using subject
matter knowledge, I selected 4 important variables. Regarding the rest 9
variables, I tried to perform data reduction by principal component
analysis (PCA). However, 8 of 9 variables were binary and only one
continuous. I transformed the data by
2004 Jun 28
3
How to determine the number of dominant eigenvalues in PCA
Dear All,
I want to know if there is some easy and reliable way
to estimate the number of dominant eigenvalues
when applying PCA on sample covariance matrix.
Assume x-axis is the number of eigenvalues (1, 2, ....,n), and y-axis is the
corresponding eigenvalues (a1,a2,..., an) arranged in desceding order.
So this x-y plot will be a decreasing curve. Someone mentioned using the elbow (knee)
2006 Mar 09
3
OT: Snom 320, displaying text on the scree n from *
try "sipsak -M -O desktop -B "foo" -s sip:<user>@<registrar> -H <ip of
registrar>"
the trick is to specify the "-O desktop" parameter + the "-H <ip of
registrar>" parameter. Sipsak fakes the host-header of the registrar so that
the Snom thinks it is coming from your Asterisk server, then lets the
message through to the
2005 Nov 22
1
SPSS-like factor analysis procedure
I've read through many postings about principle component analysis in
the R-help archives, but haven't been able to piece together the
information I need. I'd like to recreate an SPSS-like experience of
factor analysis using R. Here's what SPSS produces:
1. Scatterplots of all possible variable pairs, with regression lines.
xyplot(my.dataframe) is perfect but for the lack of
1997 Aug 21
0
R-alpha: Mutivariate Analysis
>>>>> Ross Ihaka writes:
> I have got a little side-tracked (from graphics) and am putting
> together a little multivariate analysis library. This is just
> intended to be a "core" library rather than anything exhaustive.
> Mainly it is a matter of putting togther code which already exists at
> StatLib. Here is my present list (only some of which is
2006 Apr 01
2
[PATCH] Implement window zoomin/zoomout on create/unmap
This patch makes windows zoom in and out of a zero point on
create/unmap. I've cleaned up the formatting/style to be consistent with
the rest of compiz (eg adding spaces around operators, tabifying, using
C style comments).
This patch could use some more work. It should only apply to decorated
toplevels, but right now it also affects XUL menus (I guess because they
are not unmanaged like
2010 Dec 09
1
Number of dimension in Multidimensional Scaling
Hello!
Very often one can hear that MDS usually ends with two-dimensional
solution. Of course, there are methods, like Scree-test (proposed by
Kruskal and Wish, 1981), to determine optimal number of dimensions.
However, I am trying to find references to this two-dimensional
gold-standard. Can anyone point me to authors which explicitly states
that two-dimensions are typical and easiest to
2011 Feb 23
1
Plot confidence intervals
Hello, list:
I'm not sure about where to send this question. I have several repeatability calculations, together with their 95% confidence intervals, and I would like to plot them, in a way similar to error bars. I was wondering if there is any specific function to do this, or any method I can apply in R, as I haven't found anything like that in the R book.
Thank you very much
2009 Oct 18
1
Rscript not returning zero
Hi
I'm trying to run a R script in a computer grid using the Rscript
interpreter, but the Rscript is not returning zero (even when the
scripts processes succesfully) on its exit which causes the scheduler
to detect an error and not records the output.
Is there any way to get the Rscript returning zero ?
--
"A critical section of code is like a bathroom. Only one person is
allowed
2010 May 01
0
Error in MEEM
Hello everyone:
It's the first time I write to this mailing list. Sorry in advance if my doubt has already been posted before, but I have been checking the archives and I haven't been able to find anything satisfactory.
I am running a mixed effects model with nested effects (site and pair, referred to barn swallow nests located in different places in different farms). My dependent
2005 Mar 14
1
Significance of Principal Coordinates
Dear all,
I was looking for methods in R that allow assessing the number of
significant principal coordinates. Unfortunatly I was not very
successful. I expanded my search to the web and Current Contents,
however, the information I found is very limited.
Therefore, I tried to write code for doing a randomization. I would
highly appriciate if somebody could comment on the following approach.
2004 Sep 10
1
R conversion
I am a newcomer to R trying to convert a SAS program to R.
Does anyone know if there is a functional equivalent of the SAS
'Factor' procedure?
For example in SAS:
proc factor DATA=cor method=principal rotate=varimax proportion=0.9 scree
where 'cor' is a correlation matrix (as in the R 'cor' function)
This should get you a list of eigen values as well as a factor
2009 Jun 24
1
Random Forest Variable Importance Interpretation
Hi
I am trying to explore the use of random forests for regression to
identify the important environmental/microclimate variables involved in
predicting the abundance of a species in different habitats, there are
approx 40 variable and between 200 and 500 data points depending on the
dataset. I have successfully used the randomForest package to conduct
the analysis and looked at the %IncMSE