Le Sun, Aug 24, 2008 at 10:56:43PM -0700, Yuan Jian a écrit :
> hi,
> when I used cbind to combine columns, some contents of columns has been
> replaced by
> number. in the script below, column should be aaa,bbb,ccc but I was given
> 1,2,3.
> but when I change the column to vector, it gave me cor
I was too optimistic - the complexity is O(E*log(V)) where V is the number of
nodes, but since log(25000) < 20 this is still reasonable.
--- On Mon, 25/8/08, Moshe Olshansky <[EMAIL PROTECTED]> wrote:
> From: Moshe Olshansky <[EMAIL PROTECTED]>
> Subject: Re: [R] Igraph library: How to calculat
hi,
when I used cbind to combine columns, some contents of columns has been
replaced by
number. in the script below, column should be aaa,bbb,ccc but I was given 1,2,3.
but when I change the column to vector, it gave me correct contents. can you
please
tell me why?
> d<-read.table("aaa.txt")
>
As far as I know/remember, if your graph is connected and contains E edges then
you can find the shortest distance from any particular vertex to all other
vertices in O(E) operations. You can repeat this procedure starting from every
node (out of the 500). If you have 100,000 edges this will req
Hi, Weiwei,
I think you can try fisher exact test simply. Take all genes of your
organism as sample pool and your question is that: when you selected two
gene lists from the sample pool, how to judge the independence of the two
gene lists. The fisher exact test worked for this type of question.
B
Thanks to Professors Ripley and Turlach for their help. Brian's solution
was simple and elegant but Berwin's was also informative.
Murray Jorgensen
Prof Brian Ripley wrote:
On Sun, 24 Aug 2008, Berwin A Turlach wrote:
G'day Murray,
On Sun, 24 Aug 2008 18:34:39 +1200
Murray Jorgensen <[EMAIL
Dear R Users,
I have a network of 25000 total nodes and a list of 500 node which is a
subset of all nodes. Now I want to calculate the APSP (all pair shortest
path) matrix only for these 500 nodes.
I would appreciate any help.
Thanks in advance
Dinesh
--
Dinesh Kumar Barupal
Research Associate
Are you trying to fit a Poisson GLMM with Gamma random effects? I don't
think you can do that using (g)lmer, which assumes a Gaussian
distribution for the random effects. You might have a look at the hnlmix
function in Jim Lindsey's repeated package. Or you could use Bayesian
methods in JAGS, BUGS
Use Rprof to see where time is being spent. If it is in FUN, then
there is probably no way to "optimize" outside of changing the way FUN
works. So the first thing is to decide where time is being spent.
On Sun, Aug 24, 2008 at 6:35 PM, Adaikalavan Ramasamy
<[EMAIL PROTECTED]> wrote:
> Hi,
>
> I
I'm trying to figure out how to carry out a Poisson regression fit to
longitudinal data with a gamma distribution with unknown shape and
scale parameters.
I've tried the 'lmer4' package's glmer() function, which fits the
Poisson regression using:
library('lme4')
fit5<- glmer(seizures ~ time
Is there anyone who can tell me what this means (I call a table, that is stores
as csv file): Error in do.call("data.frame", rval) : symbol print-name too long
Thanks you in advance,Akko Eleveld
_
[[alternative HTML versio
remember the the inverse of fft has to be divided by the number of observations.
On Sun, Aug 24, 2008 at 8:35 PM, Moshe Olshansky <[EMAIL PROTECTED]> wrote:
> Hi Wolf,
>
> Without noise you could use FFT, i.e. FFT of a convolution is the product of
> the individual FFTs and so you get the FFT of
Hi Wolf,
Without noise you could use FFT, i.e. FFT of a convolution is the product of
the individual FFTs and so you get the FFT of your input signal and using
inverse FFT you get the signal itself.
When there is noise you must experiment. You may want to filter the response
before doing FFT.
Hello R list
I was intending to use a cat statement within Sweave code chunks that
generate greaphs to generate a readme.txt file listing all the figures
generated with a brief caption along the lines of:
desired format of "readme.txt"
_
figure1.eps caption for
Hi,
I calculating the output of a function when applied to pairs of row from
a single matrix or dataframe similar to how cor() and pairs() work. This
is the code that I have been using:
pairwise.apply <- function(x, FUN, ...){
n <- nrow(x)
r <- rownames(x)
output <-
Hi,
Maybe someone could give me some pointers for my problem. So far I have
not found a good solution, maybe it is just ill posed?
I have a signal that is the result of an input signal convolved with a
given impulse response function (IRF) plus noise. I want to use the this
signal and the IR
On 25/08/2008, at 4:49 AM, ascentnet wrote:
Greetings!
I was wondering how to plot multiple equation on the same plot with
the
data?
So if I have three equations:
1.y= 2.31X + -2.2
2.y= 2.27X^2 + 5.63X + 0.52
3.y= -1.53X^3 + 1.92X^2 + -4.72X + 4.57
and a datafram or a 2D matrix. I w
Greetings!
I was wondering how to plot multiple equation on the same plot with the
data?
So if I have three equations:
1.y= 2.31X + -2.2
2.y= 2.27X^2 + 5.63X + 0.52
3.y= -1.53X^3 + 1.92X^2 + -4.72X + 4.57
and a datafram or a 2D matrix. I would also like the equations in different
colors,
Heidi,
The interaction2wt function in the HH package does much of what you are
looking for.
You will probably need to download HH from CRAN.
interaction2wt {HH} R Documentation
Plot all main effects and twoway interactions in a multifactor design
Description
The main diagonal displays boxplots
On Sun, Aug 24, 2008 at 11:54 AM, Ben Bolker <[EMAIL PROTECTED]> wrote:
>
>
> Wade Wall gmail.com> writes:
>
>> I am trying to look for a way to eliminate columns that sum to zero. Any
>> help would be appreciated.
>
> x_without_zero_cols <- x[,colSums(x)!=0]
Of course, depending on the nature o
Wade Wall gmail.com> writes:
> I am trying to look for a way to eliminate columns that sum to zero. Any
> help would be appreciated.
x_without_zero_cols <- x[,colSums(x)!=0]
If you want to make some return for this helpful advice,
you could take this information and add it to the "R tips"
Hi all,
I am trying to look for a way to eliminate columns that sum to zero. Any
help would be appreciated.
Wade
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On 8/24/08, Jim Lemon <[EMAIL PROTECTED]> wrote:
> On Sun, 2008-08-24 at 00:21 -0700, J Dougherty wrote:
>> Is anyone else encountering trouble viewing the basic www.r-project
Here is some recent update: Any thoughts?
I have collected a list of experiment result data. I put them into a
table.
There are N rows corresponding to N data points.
For i-th row, it contains data of the form y_i = f(a_i, b_i, c_i, d_i,
e_i, f_i),
where f is a possibly stochastic function, a,
On Sun, 24 Aug 2008, Berwin A Turlach wrote:
G'day Murray,
On Sun, 24 Aug 2008 18:34:39 +1200
Murray Jorgensen <[EMAIL PROTECTED]> wrote:
I want to extra the part of the formula not including the response
variable from an lm object. For example if the lm object ABx.lm was
created by the call
On Sun, 24 Aug 2008, J Dougherty wrote:
Is anyone else encountering trouble viewing the basic www.r-project.org page?
Or has it been changed recently so that google hasn't kept up? I find I can
access the mirror of the CRAN page at http://www.maths.bris.ac.uk/R/, none of
the *.org pages. Nor c
Hello all,
beside saying again thank you for your help, I'd like to present the
final solution of my problem and the results of the kappa-calculation:
> election.2005 <- c(16194,13136,3494,3838,4648,4118)
#data obtained via genesis-database of "Statistisches Bundesamt"
www.destatis.de
#simply cut
Hi
I'd really like to get a bar plot showing the means of my anova data. I have
looked everywhere and can only seem to find instructions for 2 way anova's.
I basically want to look at the mean condition of my subjects spilt by age, sex
and year (as a factor rather than a continuous variable,
Hi Christoph,
perfect! Your code worked out of the box (copy and paste ;-). I had
expected at least some lines of code, but this is really easy!
So once you get used to command line, this is much more flexible (and
comfortable!) than all these coloured windows. Can't tell you how happy
I am, that
J Dougherty wrote:
Is anyone else encountering trouble viewing the basic www.r-project.org page?
Or has it been changed recently so that google hasn't kept up? I find I can
access the mirror of the CRAN page at http://www.maths.bris.ac.uk/R/, none of
the *.org pages. Nor can I jump to the R
On Sun, 2008-08-24 at 00:21 -0700, J Dougherty wrote:
> Is anyone else encountering trouble viewing the basic www.r-project.org page?
>
> Or has it been changed recently so that google hasn't kept up? I find I can
> access the mirror of the CRAN page at http://www.maths.bris.ac.uk/R/, none of
On Sat, 2008-08-23 at 12:04 -0400, Juliet Hannah wrote:
> Is there an easy way to make graphs for the following data. I have
> pretest and posttest scores for men and
> women. I would like to form a 'titlted segment' plot for the data.
> That is, make segments joining the scores,
> with different t
G'day Murray,
On Sun, 24 Aug 2008 18:34:39 +1200
Murray Jorgensen <[EMAIL PROTECTED]> wrote:
> I want to extra the part of the formula not including the response
> variable from an lm object. For example if the lm object ABx.lm was
> created by the call
>
> ABx.lm <- lm( y ~ A + B + x, ...)
>
>
I want to extra the part of the formula not including the response
variable from an lm object. For example if the lm object ABx.lm was
created by the call
ABx.lm <- lm( y ~ A + B + x, ...)
Then ACx.lm is saved as part of a workspace.
I wish to extract "~ A + B + x". Later in my code I will fi
Is anyone else encountering trouble viewing the basic www.r-project.org page?
Or has it been changed recently so that google hasn't kept up? I find I can
access the mirror of the CRAN page at http://www.maths.bris.ac.uk/R/, none of
the *.org pages. Nor can I jump to the R homepage from the CR
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