Displaying 20 results from an estimated 6000 matches similar to: "Clean up biplot resulting from princomp()"
2012 Apr 20
1
Quick question about princomp/biplot
Hi everyone.
I performing a simple PCA using the princomp function. Then, I use the
biplot function to show it. However, the function use line number to
represent samples. I would like to know if there's a way to use a dot
(point) instead of the line number when using the biplot function.
With regards,
Phil
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2006 Jul 31
1
How does biplot.princomp scale its axes?
I'm attempting to modify how biplot draws its red vectors (among other
things). This is how I've started:
Biplot <- function(xx, comps = c(1, 2), cex = c(.6, .4))
{
## Purpose: Makes a biplot with princomp() object to not show arrows
## ----------------------------------------------------------------------
## Arguments: xx is an object made using princomp()
##
2004 Sep 30
3
biplot.princomp with loadings only
Hi
is there a way to plot only the loadings in a biplot (with the nice
arrows), and to skip the scores?
thanks
christoph
2003 Apr 04
2
biplot
Dear list,
I want to perform a biplot, using customized titels for the x and y axis.
Setting xlab="" and ylab="" resulted in an error, e.g.:
> data(USArrests)
> biplot(princomp(USArrests),xlab="",ylab="")
Error in biplot.default(t(t(scores[, choices])/lam), t(t(x$loadings[, :
length of dimnames[1] not equal to array extent
>
How do I
2009 Feb 24
1
biplot.princomp - changing score labels
Dear R helpers,
When producing a PCA biplot, vectors of environmental variables (as red
arrows with labels) and scores of the observations (black labels
(observation names)) are plotted by default. How can I change the
graphical output? Let's say I would like that the scores are plottet
only as symbols and not text. The only solution I found was this post in
the help archive
2012 Apr 25
1
pca biplot.princomp has a bug?
x=rmvnorm(2000, rep(0, 6), diag(c(5, rep(1,5))))
x=scale(x, center=T, scale=F)
pc <- princomp(x)
biplot(pc)
There are a bunch of red arrows plotted, what do they mean? I knew that the
first arrow labelled with "Var1" should be pointing the most varying
direction of the data-set (if we think them as 2000 data points, each being
a vector of size 6). I also read from
2010 Apr 27
1
Symbols in biplot
Hello all,
I just started in on R today. I am at the point where I am trying
to distinguish different groups of data (hydrochemical data) in
biplot. I search and found a post about converting the sample number
in biplot to a symbol like x or +
"> temp <- matrix(runif(50), nrow=10)
> temp.pca <- princomp(temp)
> biplot(temp.pca, xlabs=c("A", "A",
2012 Jun 18
2
How can I "declutter"/make a biplot less messy in R
I am doing a principle component analysis on a dataset with a lot of
different variables and have constructed a biplot of the data.
Unfortunately, as can be seen on the attached image, the biplot is very
messy, cluttered, and hard to read. I have performed a few modifications
including outlier removal from a few of the variables, which has made the
plot better, however it still is too cluttered
2009 Sep 02
4
"biplot" graphical options?
Dear R-help fellows
good afternoon.
I am struggling in the attempt to impose some graphical conditions (changing point symbols, colors, etc) to biplot function (I am using it to visualize the results of princomp) but I can't apparently manage to change anything but the axis... and I have been browsing manuals and vignettes without finding any explicit suggestions on how to operate...
Can
2006 Sep 06
2
biplot label size
Which is the parameter that is used to decrease the size of ylabs
plotted in biplot? I tried playing with cex and cex.lab I am not getting
it right
pc <- princomp(USArrests)
biplot(pc, xlabs = rep("", nrow(USArrests)),ylabs=(colnames(USArrests)))
Thanks../Murli
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2009 Mar 01
3
Modifying a built-in R function
Hello,
Something incredible (at least for me) has happen. Yesterday night I
downloaded biplot.R to edit this function and add new features I wished.
Namely I wanted to plot points belonging to different groups using different
colors and symbols. I identified which part of the original code I had to
modify. Then, I rename biplot by biplotes and executing biplotes(x), being x
a princomp class
2010 Apr 02
2
Biplot for PCA using labdsv package
Hi everyone,
I am doing PCA with labdsv package. I was trying to create a biplot graphs
in order to observe arrows related to my variables. However when I run the
script for this graph, the console just keep saying:
*Error in nrow(y) : element 1 is empty;
the part of the args list of 'dim' being evaluated was:
(x)*
could please someone tell me what this means? what i am doing
2002 Apr 30
1
ylim in biplot does not seem to work (PR#1498)
Full_Name: Hinrich Göhlmann
Version: 1.4.1
OS: Windows 2000
Submission from: (NULL) (148.177.130.121)
Hi all,
I've searched the known bugs and hopefully I did not oversee this one...
When I have done a normal
zz<-princomp(na.omit(raw.data))
and I then draw a biplot with
biplot(zz,cex=c(.1,.7),col=c(5,1),choice=c(1,2),xlim=c(-2,2),ylim=c(-5,2))
the x axis gets set properly, but the y
2006 Dec 18
1
Replacing labels with symbols in biplot
Dear all
I would like to replace labels for x in biplot() with symbols (points)
that will visually illustrate different classes/groups. After an
unsuccessful search through the documents and archives, I turn to the
list for help - any suggestions that can point me in the right
direction?
Thanks
Mat Vanderklift
2002 Sep 09
1
Re: Biplot function of PCA
[was sent a wrong R-help address; manually resent by MM]
Hello
I'am using the 'biplot' and 'biplot.pincomp' functions of the 'mva'
package for my studies.
The biplot represents both the observations and the variables of a
matrix of multivariate data on the same plot.
The observations are represented by their numbers (the line of the data
matrix), but I would need to
2003 Oct 16
1
princomp with more coloumns than rows: why not?
As of R 1.7.0, princomp no longer accept matrices with more coloumns
than rows. I'm curious: Why was this decision made?
I work a lot with data where more coloumns than rows is more of a rule
than an exception (for instance spectroscopic data). To me, princomp
have two advantages above prcomp: 1) It has a predict method, and 2)
it has a biplot method.
A biplot method shouldn't be too
2005 May 09
1
units of a biplot
Hello everybody,
I am afraid this might be a stupid question, but after scanning a little
bit through the help archive and the internet, I didn't come up with an
answer myself.
I have done a principle component analysis on a data set, which yields
the mean response of 14 olfactory neurons to 16 different odors. When
plotting the result in a biplot, it nicely shows me the odors in
2008 Jun 17
4
PCA analysis
Hi,
I have a problem with making PCA plots that are readable.
I would like to set different sympols instead of the numbers of my samples or their names, that I get plotted (xlabs).
How is this possible? With points, i don´t seem to get the right data plotted onto the PCA plot, as I do not quite understand from where it is taken. I dont know how to
plot the correct columns of the prcomp
2007 May 13
2
Biplot
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2005 Apr 21
1
biplot graphical problems
Hello,
I have a graphical problem concerning a biplot that I was ask to insert
in a scientific work to be published.
I've performed a princomp analysis and produce the relative biplot but
the labels of variables are out of margin (see attached file).
When I try to wide the x axis by the function xlim=c(i:j), nothing
happens if not a partial shift of the x range. Is there any specific