You may also be interested in the psych package or possibly
mvtBinaryEP. I found these using sos:
library(sos)
tc - findFn('tetrachoric correlation') # 26 matches
tcs - findFn('tetrachoric correlations')#27 matches
tc. - tc|tcs
summary(tc.) # 35 links in 5 pkgs
tc.
All but 3 of
maybe this helps
http://comisef.wikidot.com/tutorial:correlateduniformvariates
regards
enrico
-Ursprüngliche Nachricht-
Von: r-help-boun...@r-project.org
[mailto:r-help-boun...@r-project.org] Im Auftrag von Søren Faurby
Gesendet: Sonntag, 20. Februar 2011 03:18
An:
On Sun, Feb 20, 2011 at 5:23 AM, Elliot Joel Bernstein
elliot.bernst...@fdopartners.com wrote:
On Feb 18, 2011 11:02 PM, Deepayan Sarkar deepayan.sar...@gmail.com
wrote:
On Fri, Feb 18, 2011 at 11:04 PM, Elliot Joel Bernstein
elliot.bernst...@fdopartners.com wrote:
I'm trying to use
On Sun, Feb 20, 2011 at 12:18 AM, Peter Langfelder
peter.langfel...@gmail.com wrote:
On Sat, Feb 19, 2011 at 6:17 PM, Søren Faurby
soren.fau...@biology.au.dk wrote:
I wish to generate a vector of uniformly distributed data with a defined
correlation to another vector
The only function I
In a little over a month (Mar 28), students will have just over a week (until
April 8) to
apply to work on Google Summer of Code projects. In the past few years, R has
had several
such projects funded. Developers and mentors are currently preparing project
outlines on
the R wiki at
Relatedness if often defined in terms of the kinship matrix. It may be
helpful to search for this. Several packages in R use this matrix
including the kinship package.
On Wed, Feb 16, 2011 at 3:14 PM, Val valkr...@gmail.com wrote:
Hi all,
I want to construct relatedness among individuals and
May I add that the best documentation for building packages is the
Writing R Extensions that ships with the current R version. It is
always current, precise, and not as outdated as many resources you find
somewhere in the web - yes, the one cited below is outdated.
Uwe Ligges
On 19.02.2011
Does anyone know of example r-code/packages for carrying out analysis?
Preferably this would have examples from real experimental data of two or
more competing species...
Thanks
Chris Buddenhagen
[[alternative HTML version deleted]]
__
On 20 February 2011 16:19, Chris Buddenhagen cbuddenha...@gmail.com wrote:
Does anyone know of example r-code/packages for carrying out analysis?
Preferably this would have examples from real experimental data of two or
more competing species...
In discrete time, you can use a Gompertz
model - lm(Approximate.Counts~X..Light.Transmission +
I(Approximate.Counts^2), data=Standards)
Might not be addressing the problem, don't you have Y ~ X + Y^2 here? That's
a violation of the assumptions of an lm isn't it?
Also for plotting CI on a curve look into ggplot2::geom_ribbon, it's
Hi,
I have a DF like this:
DF = data.frame(read.table(textConnection(A B C
1 b1 1999 0.25
2 c1 1999 0.25
3 d1 1999 0.25
4 a2 1999 0.25
5 c2 1999 0.25
6 d2 1999 0.25
7 a3 1999 0.25
8 b3 1999 0.25
9 d3 1999 0.25
10 a4 1999 0.25
11 b4 1999 0.25
12 c4 1999 0.25
13 b1
I am in the situation where I have to make a two-dimential plot of a set. If I
simplify my data it would be something along the lines of wanting to plot {x,y|
x^2+y^2 = 1}.
I am aware of the contour and persp plot, but cannot figure out how to convert
one of those to draw the set. I have
Dear Sir, I'm using the Metafor package;
however, introducing moderators, I'm unable to obtain both I^2 (%
of total variability due to heterogeneity) and H^2 (total variability
/ within-study variance). It is possible to obtain I^2 and H^2 also
with moderators?
As example
ls is a list of character vectors created by strsplit()
I want to concatenate the 1st 4 character elements of each list item as a new
vector called file. I admit to being confused about list syntax even after
numerous readings.
Here's what I tried:
ls - list(c(Focused, 10k, A12, t04.tif, +,
Hi Robert,
You might try
do.call(rbind, lapply(yourlist, [, 1:4))
and then write the resulting file using write.table(...).
Best,
Jorge
On Sun, Feb 20, 2011 at 11:13 AM, Robert Baer wrote:
ls is a list of character vectors created by strsplit()
I want to concatenate the 1st 4 character
Hi, I'd like to prevent the export a specific function in the
NAMESPACE file. The example in the R documentation uses a regex to
prevent export of a set of functions, but as far as I can see there is
no easy way to specify that a function of a specific name should not
be exported. This thread
mathijsdevaan wrote:
I have a DF like this:
DF = data.frame(read.table(textConnection(A B C
1 b1 1999 0.25
2 c1 1999 0.25
..
For each factor in A I want to sum the values of C for all years(Bn) prior
to the current year(Bi):
1 b1 1999 0.25 0
2 c1 1999 0.25 0.4
3
On Feb 20, 2011, at 4:41 AM, . . wrote:
I am in the situation where I have to make a two-dimential plot of a
set. If I simplify my data it would be something along the lines of
wanting to plot {x,y| x^2+y^2 = 1}.
I am aware of the contour and persp plot, but cannot figure out how
to
You might try
do.call(rbind, lapply(yourlist, [, 1:4))
Thanks, Jorge, but when I tried this I simply got a matrix of character
strings rather than my original list of character strings as in:
m = do.call(rbind, lapply(ls, [, 1:4))
m
[,1] [,2] [,3] [,4]
[1,] Focused 10k A12 t04.tif
On Feb 20, 2011, at 11:13 AM, Robert Baer wrote:
ls is a list of character vectors created by strsplit()
I want to concatenate the 1st 4 character elements of each list
item as a new vector called file. I admit to being confused about
list syntax even after numerous readings.
Here's
On Feb 20, 2011, at 12:49 PM, David Winsemius wrote:
On Feb 20, 2011, at 11:13 AM, Robert Baer wrote:
ls is a list of character vectors created by strsplit()
I want to concatenate the 1st 4 character elements of each list
item as a new vector called file. I admit to being confused
Thank you!
--
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Thanks for the quick response, but it doesn't do the trick. There are two
problems:
1. The ith value of the newly created variable DF$D also includes the ith
value of DF$C (this problem is easily solved by DF$D = DF$D-DF$C.)
2. If group i in DF$group appears more than once in year t, the value of
On Sun, Feb 20, 2011 at 12:43 PM, Robert Baer rb...@atsu.edu wrote:
You might try
do.call(rbind, lapply(yourlist, [, 1:4))
Thanks, Jorge, but when I tried this I simply got a matrix of character
strings rather than my original list of character strings as in:
m = do.call(rbind, lapply(ls,
Thanks Jorge and David. Both worked. Looks like I have to read more on [
as an extractor function for lists. do.call() is also on my list of low
level magic' I don't understand. G Appreciate the help!
fil1 = do.call(c, lapply(lapply(ls1, [, 1:4), paste, sep = , collapse =
-))
fil2 =
It is, I tried a glm with a poisson distribution, as was suggested to me
previously, but the Residual Deviance was too high - the book I'm
reading says it suggests overdispersion because it's way above the
Residual degrees of freedom:
glm(formula = Approximate.Counts ~ X..Light.Transmission,
Thanks Gabor. Your suggestions work as well and have been helpful in my
understanding, I can't use any excuse of not knowing about ] in this
case!
Rob
fil3 = sapply(ls1, function(x) paste(x[1:4], collapse = ))
fil4 = sapply(unname(as.data.frame(ls1))[1:4,], paste, collapse = )
fil5 =
On Feb 20, 2011, at 1:27 PM, Ben Ward wrote:
However, the
Y ~ X + Y^2
Produces the best fitting line - it is pretty much on the data
points - I'm trying to make a standard curve, with which to take
readings from a spectrophotometer off of. Rather than what I would
normally use models
when I calculate the bootstrap standard errors the results are summarized in
a matrix with columns equal to the parameters of the model. In my case I
have a matrix like this:
[,1] [,2] [,3] [,4] [,5]
[,6][,7] [,8][,9]
Hi Ingo,
Sorry for being so slow to get back to you. I've had a bit of a problem with
my internet connection.
Just how large is the data set? You might want to have a look at this thread
re size of R data files.
http://r.789695.n4.nabble.com/Boundaries-of-R-td3312593.html .
In any case,
I am using randomForest package to do some prediction job on GWAS data. I
firstly split the data into training and testing set (70% vs 30%), then
using training set to grow the trees (ntree=10). It looks that the OOB
error in training set is good (10%). However, it is not very good for the
On Feb 20, 2011, at 2:20 PM, danielepippo wrote:
when I calculate the bootstrap standard errors
... of what?
the results are summarized in
a matrix with columns equal to the parameters of the model.
... but they are all the same within each row???
In my case I
have a matrix like this:
Can anyone help me please?
--
View this message in context:
http://r.789695.n4.nabble.com/Bootstraps-standard-error-tp3313322p3315463.html
Sent from the R help mailing list archive at Nabble.com.
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Hi all,
I am trying to plot the fitted trajectories for each individual from an
individual growth model (fit with a linear mixed effects model in lme). How
can I plot each person's trajectory in the *same* panel, along with the
mean-level trajectory?
Below is an image of a plot similar to what
Hi,
I have the same problem to find out the standard errors of the parameter
in the same package you have used.
I couldn't find out how to get standard errors and p-values from the
package, so I bootstrapped them.
Can you explain your method to find out the standard errors with the
bootstrap
On 11-02-20 11:58 AM, Rajarshi Guha wrote:
Hi, I'd like to prevent the export a specific function in the
NAMESPACE file. The example in the R documentation uses a regex to
prevent export of a set of functions, but as far as I can see there is
no easy way to specify that a function of a specific
Bob O'Hara rni.boh at gmail.com writes:
On 20 February 2011 16:19, Chris Buddenhagen wrote:
Does anyone know of example r-code/packages for carrying out analysis?
Preferably this would have examples from real experimental data of two or
more competing species...
In discrete time,
Listers,
I have a simple matrix:
--
m -c(1:7)
m - cbind(m)
m
[1,] 1
[2,] 2
[3,] 3
[4,] 4
[5,] 5
[6,] 6
[7,] 7
---
I want to add a second column using:
[[alternative HTML version deleted]]
On Sun, Feb 20, 2011 at 5:55 PM, Dmitry Berman ravenb...@gmail.com wrote:
Listers,
I have a simple matrix:
--
m -c(1:7)
m - cbind(m)
m
[1,] 1
[2,] 2
[3,] 3
[4,] 4
[5,] 5
[6,] 6
[7,] 7
---
I want to add a second
On Feb 20, 2011, at 5:56 PM, Dmitry Berman wrote:
On Sun, Feb 20, 2011 at 5:55 PM, Dmitry Berman ravenb...@gmail.com
wrote:
Listers,
I have a simple matrix:
--
m -c(1:7)
m - cbind(m)
m
[1,] 1
[2,] 2
[3,] 3
[4,] 4
[5,] 5
[6,] 6
[7,] 7
On Sun, Feb 20, 2011 at 2:56 PM, Dmitry Berman ravenb...@gmail.com wrote:
On Sun, Feb 20, 2011 at 5:55 PM, Dmitry Berman ravenb...@gmail.com wrote:
Listers,
I have a simple matrix:
--
m -c(1:7)
m - cbind(m)
m
[1,] 1
[2,] 2
[3,] 3
[4,] 4
[5,] 5
[6,]
The easiest solution may be using par(new=TRUE) and to overlay a
coloured barplot with a separate shaded barplot
HTH
Jannis
On 02/19/2011 10:58 PM, Markus Loecher wrote:
Dear all,
might there be a modified barplot function out there which allows the user
to specify a fill color for the
Could any one tell me how to implement QuadTree in R?
Or are there any packages avaialble to implement it in R.
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https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do
Hi all,
I'm trying to make multiple lattice contour plots which have the same color
key, to allow good comparisons. However, I run into some problems when
fitting the plots to the color key. Basically my strategy to tackle this
problem was:
1) define a color key for all plots;
2) calculate the
How can I get the list of non-zero features from svmpath at any given
lambda? All I get is following information and information about what
features were selected. In Iris example, we have 4 features and 60 cases. In
my own example which is 200cases by 300 features, I can't figure out how to
print
I'm looking for some tips on how to export R plots into latex. I can't
centered the plots in latex (shift to the right).
--
-Tony
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Thanks to everybody for helpfull answers.
In case other people want to generate similar data at one time
The one function I have found without any apparant bias ( such as
extreme clustering of the datapoints along one or both diagonals in
plot(x,y) or a slight bias in the generated
On 20/02/2011 18:52, David Winsemius wrote:
On Feb 20, 2011, at 1:27 PM, Ben Ward wrote:
However, the
Y ~ X + Y^2
Produces the best fitting line - it is pretty much on the data points
- I'm trying to make a standard curve, with which to take readings
from a spectrophotometer off of.
Date: Sun, 20 Feb 2011 15:56:41 +0100
From: lig...@statistik.tu-dortmund.de
To: jwiley.ps...@gmail.com
CC: r-help@r-project.org
Subject: Re: [R] Seeking help in Package development
May I add that the best documentation for building
This sounds more like a LaTeX question than an R question...
\begin{center}
\includegraphics{...}
\end{center}
If you had something else in mind please post more details.
Best,
Ista
On Mon, Feb 21, 2011 at 1:03 AM, Antonio Paredes
antonioparede...@gmail.com wrote:
I'm looking for some tips on
Hi:
This isn't hard to do with ggplot2. Here's a toy example:
d - data.frame(gp = LETTERS[1:4], frq = c(10, 25, 30, 20))
library(ggplot2)
# The fill aesthetic colors the bars, the colour aesthetic does the same for
the borders.
# (1) Same color for both, use alpha transparency:
ggplot(d,
Hi:
These are sometimes called 'spaghetti plots'; here is a variation on an
example in the ggplot2 book by Hadley Wickham using the Oxboys data from
package nlme:
library(ggplot2)
data('Oxboys', package = 'nlme')
g - ggplot(Oxboys, aes(x = age, y = height))
g + geom_line(aes(group = Subject)) +
Thanks!
It works well.
2011/2/18 Dimitris Rizopoulos d.rizopou...@erasmusmc.nl
say, 'Dat' is your data frame, then one way to do it is:
with(Dat, tapply(freq, list(hair, eye, sex), c))
I hope it helps.
Best,
Dimitris
On 2/18/2011 8:50 AM, Lao Meng wrote:
The data is in the
Thanks!
It works well.
2011/2/18 Henrique Dallazuanna www...@gmail.com
Try this:
xtabs(Freq ~ Hair + Eye + Sex, Dat)
Using Dimitri's Dat example.
On Fri, Feb 18, 2011 at 5:50 AM, Lao Meng laomen...@gmail.com wrote:
The data is in the attachment.
What I wanna get is:
, , Sex =
Well,it's my daily work on duty,not homework:)
2011/2/18 Dennis Murphy djmu...@gmail.com
This is a built-in dataset in R - see ?HairEyeColor and str() it. I smell
homework...
Dennis
On Thu, Feb 17, 2011 at 11:50 PM, Lao Meng laomen...@gmail.com wrote:
The data is in the attachment.
Greetings:
I am trying to use your R code for R-SVM as follows. Why it dosen't print
the LOO.error and the list of features?
http://www.stanford.edu/group/wonglab/RSVMpage/R-SVM.html
My training data as follows contains 142 cases and 264 features. instead I
get en error as below invalid
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