On Sun, 6 Nov 2011, R. Michael Weylandt wrote:
I think it's easier than you are making it: the random seed is created
in a "pretty-random" way when you first use it and then it is updated
Ah: It is unless you then save the workspace. If you do, then evey
subsequent session starts with the sa
This is something missing from your (unstated) Linux installation.
curl-config is part of the original libcurl sources, but Linux
distributors tend to separte it out. *How* they do so is
non-standard:
Fedora and other RPM-based distributions tend to use libcurl-devel
Debian and related tend
Hi:
I don't think you want to keep these objects separate; it's better to
combine everything into a data frame. Here's a variation of your
example - the x variable ends up being a mouse, but you may have
another variable that's more appropriate to plot so take this as a
starting point. One plot us
I think it's easier than you are making it: the random seed is created
in a "pretty-random" way when you first use it and then it is updated
with each call to rDIST().
For example,
set.seed(1)
x1 <- .Random.seed
rnorm(1)
x2 <- .Random.seed
rnorm(1)
x3 <- .Random.seed
identical(x1, x2)
FALSE
ide
There are a few (nasty?) side-effects to c(), one of which is
stripping a matrix of its dimensionality. E.g.,
x <- matrix(1:4, 2)
c(x)
[1] 1 2 3 4
So that's probably what happened to you. R has a somewhat odd feature
of not really considering a pure vector as a column or row vector but
being will
No idea how this relates to what you said originally but glad you got
it all worked out.
And let us all reiterate: really, don't use nested for loops...there's
a better way: promise!
Michael
On Sat, Nov 5, 2011 at 2:20 PM, nick_pan wrote:
> I found the way out - it was because the borders of th
On Sat, Nov 5, 2011 at 2:47 PM, eric wrote:
> I'm trying to install the rdatamarket package. I did an
> install.packages('rdatamarket') command but got an error about half way
> through the install as follows:
>
> * installing *source* package ‘RCurl’ ...
> checking for curl-config... no
> Cannot
Perhaps split() directly or more abstractly tapply() from base or one
of the d_ply() from plyr?
Michael
On Sat, Nov 5, 2011 at 7:20 PM, ScottDaniel wrote:
> So I have a text file that looks like this:
> "Label" "X" "Y" "Slice"
> 1 "Field_1_R3D_D3D_PRJ_w617.tif" 348 506
Bert, this is not helpful. Since for loops and apply functions are not
vectorized, why are you admonishing Carl that vectorizing doesn't always speed
up algorithms? He didn't reference apply functions as being vectorized. But you
seem to be doing so.
I would assert that vectorizing DOES always
Dear David,
Indeed rq() accepts a vector fo tau. I used the example given by Frank to run
fitspl4 <- summary(rq(b1 ~ rcs(x,4), tau=c(a1,a2,a3,a4)))
and it works.
I even can use anova() to test equality of slopes jointly across quantiles.
however, it would be interesting to test among differe
> regions = c('cortex', 'hippocampus', 'brain_stem', 'mid_brain',
'cerebellum')
> mice = paste('mouse', 1:5, sep='')
> for (n in c('Cu', 'Fe', 'Zn', 'Ca', 'Enzyme')) {
+ assign(n, as.data.frame(replicate(5, rnorm(5
+ }
> names(Cu) = names(Zn) = names(Fe) = names(Ca) = names(Enzyme) = regions
Hi,
Attempting to use the "anesrake" raking (also referred to as rim weighting)
package to weight survey data (Note: DATA is listed at the bottom along
with SESSION INFO AND COMMANDS ARGUMENTS USED to allow you to reproduce the
error). Presents following error message:
*"Error in selecthighestpct
So I have a text file that looks like this:
"Label" "X" "Y" "Slice"
1 "Field_1_R3D_D3D_PRJ_w617.tif" 348 506 1
2 "Field_1_R3D_D3D_PRJ_w617.tif" 359 505 1
3 "Field_1_R3D_D3D_PRJ_w617.tif" 356 524 1
4 "Field_1_R3D_D3D_PRJ_w617.tif" 2
I found the way out - it was because the borders of the vectors was close
enough thats why I had the same result while I was adding points to the
sequence. The example I gave was irrelevant but I made in order to find out
that the problem was.
Thank you all for your answers.
--
View this message
I'm trying to install the rdatamarket package. I did an
install.packages('rdatamarket') command but got an error about half way
through the install as follows:
* installing *source* package ‘RCurl’ ...
checking for curl-config... no
Cannot find curl-config
ERROR: configuration failed for package ‘
Carl: "Almost anything you can do in a for() loop can be done easier and
faster with vectorization.-- "
That is false: while this is certainly true for a great many basic
vectorized operations, it is certainly false for most other things --
simulations are a typical example. Note that __ply type o
Thank you everybody for the helpful advices.
Basically, I try to figure out why I get different numbers as there are more
than one seed for a loop within a loop. Well, I guest I got it now. Because
every time random seed is called or specified it'll output different random
numbers, as it's requ
Hi all
I´m trying to tests the significance of loadings from a ordination of 46
variables
(caategorical, ordinal and nominal). I used dudi.mix from ade4 for the
ordination. A
years ago Jari Oksanen wrote this script implementing Peres-Neto et al. 2003
(Ecology)
bootstraping method:
netobo
On 05/11/11 22:00, Patrick Burns wrote:
I'd suggest two rules of thumb when coming
up against something in R that you aren't
sure about:
1. If it is a mundane task, R probably
takes care of it.
2. Experiment to see what happens.
Of course you could read documentation, but
no one does that.
You need to define "l" as a dimensioned object , either a vector or an array,
and then assign the value of your calculation to the correctly indexed
"location" in that object. Otherwise you are just overwriting the value each
time through the loop. Use these help pages (and review "Introduction
Humm... I was using adegenet / ade4 packages and both R and R studio prompted
the questions.
Sorry, I did so many searches on R help and Adegenet help that I forgot to
mention the packages I was using...
Juliana
--
View this message in context:
http://r.789695.n4.nabble.com/error-message-tp32234
What prompted the questions? If it was a specifically biological/genetic
package the bioconductor list can probably provide better help than this list.
Michael
On Nov 5, 2011, at 3:12 PM, JulianaMF wrote:
> Hello Michael,
> Sorry, I am just starting to lear all this.
> Here is one of my input
Hello Michael,
Sorry, I am just starting to lear all this.
Here is one of my input files (from a .str file) in which the first column
are the individuals, the second is the pop info (in this case I am stating
that I have one pop because I am still trying to find out which are the
clusters in my sam
Look at the txtStart function in the TeachingDemos package. It works like sink
but also includes commands as well as output. Though I have never tried it
with browser() (and it does not always include the results of errors).
Another option in to use some type of editor that links with R such a
Running
rownames(installed.packages())
will tell you the names of all packages of the version of R in which you are
running the command.
http://cran.r-project.org/doc/FAQ/R-FAQ.html#R-Add_002dOn-Packages
tells you the names of the packages which were installed with R itself.
On Nov 5, 2011, at
If in fact this is homework, you will do yourself, your classmates, and
possibly your teacher if you let them know that, at least in R, almost
anything you can do in a for() loop can be done easier and faster with
vectorization. If you teacher can't comprehend this, get him fired.
a<-c(4,6,3)
I suppose this constitutes thread drift, but your simple example, Frank, made
wonder if Rq() accepts a vector argument for tau. I seem to remember that
Koencker's rq() does.. Normally I would consult the help page, but the power is
still out here in Central Connecticut and I am corresponding wit
Although it is possible to communicate with the list server via email, most
people have better luck with the web interface. That applies with even greater
force when the person is unable to spell the server commands.
https://stat.ethz.ch/mailman/options/r-help
--
David.
On Nov 5, 2011, at 10:40
+
Hello,
I want to delete prior questions online but am getting an error message?
Please see R code in enclosed file. I don't understand the error message.
The parametric equations of an ellipsoid can be written in terms of spherical
coordinates. The three spherical coor
I think the installed.packages() function can give you what you need,
specifically look at the priority argument. Also check this out
http://stackoverflow.com/questions/1401904/painless-way-to-install-a-new-version-of-r
Michael
On Sat, Nov 5, 2011 at 9:37 AM, Cem Girit wrote:
> Hello,
>
>
>
>
David Winsemius comcast.net> writes:
>
> From that hand waving description it would be difficult to tell. Sounds like a
reinvention of the Pareto
> Index, for which you can find many packages that provide facilities:
>
> http://finzi.psych.upenn.edu/cgi-bin/namazu.cgi?query=Pareto+index&max=100
Hello,
I am going to install the new version of R 2.14.1. After the
installation, I want to copy my installed packages to the new library. But
since over time I forgot which ones I installed I want to get a list of all
the packages I installed among the packages installed initia
Just to address a piece of this - in the case in which you are currently
focusing on only one quantile, the rms package can help by fitting
restricted cubic splines for covariate effects, and then run anova to test
for nonlinearity (sometimes a dubious practice because if you then remove
nonlinear
^_^
> From: dwinsem...@comcast.net
> Date: Fri, 4 Nov 2011 22:02:13 -0400
> To: peter.langfel...@gmail.com
> CC: r-help@r-project.org; christian.langk...@gmxpro.de
> Subject: Re: [R] 12th Root of a Square (Transition) Matrix
>
> This is just one of many 12-th roots. (Peter knows this i'm sur
On Fri, Nov 4, 2011 at 1:02 PM, Gabor Grothendieck
wrote:
> On Fri, Nov 4, 2011 at 12:56 PM, Gabor Grothendieck
> wrote:
>> On Fri, Nov 4, 2011 at 12:34 PM, James Marca
>> wrote:
>>> Good morning,
>>>
>>> I have discovered what I believe to be a performance regression
>>> between Zoo 1.6x and Zo
Why do you need to do it with nested for loops? It is of course possible - and
I hinted how to do it in my first email - but there's no reason as far as I can
see to do so, particularly as a means of MLE. Sounds suspiciously like
homework...
Michael
On Nov 4, 2011, at 10:14 PM, nick_pan wrote
Dear R-users,
I'm estimating a two- dimensional state-space model using the FKF package.
The resulting log likelihood function is maximized using auglag from the
Alabama package. The procedure works well for a subset of my data, but if I
try to use the entire data set I get the following error mes
Dear all,
I would like to know whether any specification test for linear against
nonlinear model hypothesis has been implemented in R using the quantreg
package.
I could read papers concerning this issue, but they haven't been implemented at
R. As far as I know, we only have two specificatio
>From that hand waving description it would be difficult to tell. Sounds like a
>reinvention of the Pareto Index, for which you can find many packages that
>provide facilities:
http://finzi.psych.upenn.edu/cgi-bin/namazu.cgi?query=Pareto+index&max=100&result=normal&sort=score&idxname=functions&i
Hi,
Sorry i have put such a detailed question to the list about writing a shapefile
with projection. I realized that if i use writeOGR from rgdal and not the other
write shapefile functions i can get a shapefile with projection recognized by
ArcGIS. The command is (in case anybody wonders):
?
Hi to all
is there a similar package like the SKEW CALCULATOR from
Peter Nonacs (University of California - Department of Ecology and
Evolutionary Biology)
http://www.eeb.ucla.edu/Faculty/Nonacs/shareware.htm
Kind Regards Knut
__
R-help@r-project
+
Hello,
The parametric equations of an ellipsoid can be written in terms of spherical
coordinates. The three spherical coordinates are converted to Cartesian
coordinates by
X=a cos (α) sin(θ)
Y=b sin(α) sin(θ)
Z=c cos(θ)
for α and θ
The parameter α varies fr
I'm suspecting this is confusion about
default behavior.
R automatically updates the random seed
when random numbers are generated (or
other random operations are performed).
The original poster may have experienced
systems where it is up to the user to
change the seed.
I'd suggest two rules of
Thank you , this works but I have to do it with nested for loops...
Could you suggest me a way ?
--
View this message in context:
http://r.789695.n4.nabble.com/nested-for-loops-tp3992089p3992324.html
Sent from the R help mailing list archive at Nabble.com.
__
You are 100% correct by my estimation however I suppose I am looking for the
conditions in the data that might cause the optim() or optimize() functions to
fail. I took a brief tour of the HoltWinters source but the code available
(readable) online seemed outdated (by way of conflicting descrip
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