On Thu, 22 May 2014 09:11:43 PM Ricardo Rocha wrote:
Hi everybody.
Consider the following exampling code:
x=numeric()
for(i in 1:10){
u=runif(1,-1,2)
x[i]=log(u)
}
This code, in each interation, generates a random value in the (-1,2)
interval and then calculates the log of
Ok, now I'm scared. I copied the exact code from your post and got
length(tri) = 1481 and
dim(geodel) = 15773
You are right though, there seem to bee duplicates in my original bm,
but removing them still got diffeent results. I fear there's something
weird going on with my R installation.
Hi,
You may also try:
fun1 - function(n, repl, val1, val2) {
mat1 - suppressWarnings(replicate(repl, log(runif(n, val1, val2
mat1[!is.na(mat1)][seq(n)]
}
#Jim's function
fun2 - function(init, final, val1, val2) {
i - init
while (i final) {
u - runif(1, val1, val2)
Hi,
I did use the library deldir, I didn't put that code in since I wasn't
sure if it was really relevant to the question as I just made the
tesselations identifying which tessellation belonged to which individual.
Following that I by hand recorded which individuals were sharing a boundary
with
Hi Monaly
I guess that if you made the neighborhood data available (using dput()) then
Arun will easily show you how to automatically with only a couple of code
lines instead of those many lines you had to make by hand.
Have a nice day.
Yours sincerely / Med venlig hilsen
Frede Aakmann
Hi Arun and Frede,
So the dput() is below (it's the same data file as before), but below that
is the code I used to make the tessellation. Thanks for your help.
dput(ao)
structure(list(num = 1:99, FORM_CHK = c(20870L, 22018L, 30737L,
22010L, 22028L, 36059L, 36063L, 36066L, 30587L, 30612L,
Dear R-help,
during a simulation study using glm, I got the following error message
for which I cannot determine the cause:
Error: inner loop 2; cannot correct step size
Below is the code for which this error occurred is
clog-function(){
linkfun-function(mu) qexp(mu)
Hi,
May be this helps:
#If you are okay with compressed tar files
##If the files are all in the working directory
vec1 - list.files()
vec1
#[1] 40111h162n.csv 40111h1n49.txt 40111_h1n4.txt 40111h1n50.txt
#[5] 40111h2mn52.csv
lst1 - split(vec1,substr(vec1,1,7))
#Create the subdirectory
Hi Guys,
I have been trying to create a 'balloon plot' using R, which is where the
points in a plot are scaled such that the size of the point (area)
represents the value. Eg. A small point may represent 2 and a big point may
represent 10.
The problem is that my data range between 0.3 and 0.52,
Hi,
Does anyone know how to find the reference allele used for genetic
associations ran in snpStats?
I have ran several associations using snp.rhs.tests, but I cannot tell which
allele was used as the effect allele. Is it the one coded as Al1 in the
SNP.support file? I can find the RAF (risk
Dear R users community,
For some time now I have occasionally observed some inconsistent behaviour
across identical (i.e. same 3.1.0 version and set-up / configuration) R
installations on separate Linux machines (all manufactured in the UK).
Specifically, after reading (via
Dear R buddies,
I have this data X - c(3 5 7 6 40 9 9 2 5 1 4 7 5 45 9 48 10 6 3
6 4 9 5 5 4 64 3 23 26 4 3 5 2 7 3 10 3 4 51 67 6 4 4 6 6
5 11 7 3 5)
I would like to try a Bayesian method for the parameter estimation of the
Hidden Markov model.
Could
Something like
files - list.files()
groups - unique(substr(files, 1, 7))
for(goup in groups) {
zip(paste0(group, .zip), grep(group, files, value=TRUE))
}
should get you started.
Best,
Ista
On Thu, May 22, 2014 at 3:34 PM, mr_kirkwood rkirk...@uwyo.edu wrote:
I have thousands of files
Hi all,
I have a normalized data set , in which i
had done SOM clustering , as we can get clustering results
in kmeans like :-k$cluster , we can get which element
belongs to which cluster .
But in case of SOM , can we
Hi,
You're probably not getting replies because you're not asking very
clear questions: see the posting guide for more suggestions, but at
the very minimum you need to tell us what functions you're using -
it's rather hard to answer otherwise.
Even better, provide a reproducible example as the
Searching on r-project for bayesian hidden Markov model gives several
potentially useful links:
https://www.google.com/search?q=bayesian+hidden+markov+modeldomains=r-project.orgsitesearch=r-project.orgbtnG=Google+Search
hth, Ingmar
On Fri, May 23, 2014 at 12:09 PM, Bukar Alhaji
A search at www.rseek.org for
Bayesian hidden Markov model
turns up all sorts of potentially-useful information.
Sarah
On Fri, May 23, 2014 at 6:09 AM, Bukar Alhaji alhajibuk...@yahoo.com wrote:
Dear R buddies,
I have this data X - c(3 5 7 6 40 9 9 2 5 1 4 7 5 45 9 48 10 6
3
Try Sys.getlocale() on the two machines and see if you're not getting different
results. Collating sequence differs even between different flavors of English.
E.g., some sort AaBbCb, others ABC..abc and the handling of spaces and
punctuation charactes can differ too.
(Something's not quite
Hi,
May be this helps:
dat1 - as.data.frame(matrix(1:(640*5), ncol=5,byrow=TRUE))
set.seed(41)
indx -sample(nrow(dat1),nrow(dat1),replace=FALSE)
lst1 - lapply(split(indx,as.numeric(gl(640,64,640))),function(x) dat1[x,])
A.K.
Dear all,
I have a data frame (d) composed of 640 observations for
Hi Monaly,
May be this helps:
b- 77:99
ao1 - ao[-b,]
##Your code:
XO- matrix( 0,6, 76, byrow=TRUE);XO
abo-ao$NestkastNummer[-b];abo #removed values that were NA
rownames(XO) = c(EB_score,avg,pop_size,pop_avg_score,
adj_pop_avg, ind_pop_dif)
colnames(XO) = abo
t - ao$COR_LOC;t
i - c(77:99)
ti -
F
Hi,
An R function that should be run for about 50 000 times...
during execution some data saved in data frame
how can I view the progress of the function, even its counter..?
there are print stamens inside the code but nothing show up till the end of the
run !!!
other thing, is there any
Hi,
On Fri, May 23, 2014 at 2:57 PM, Ragia Ibrahim ragi...@hotmail.com wrote:
Hi,
An R function that should be run for about 50 000 times...
during execution some data saved in data frame
how can I view the progress of the function, even its counter..?
Here are some functions to look at for help with your problem (though
as Sarah comments, it would be easier for us to help you if you help
us by giving more detail as mentioned in the posting guide).
The flush.console function will send output to the screen even when
buffering is happening.
The
Roland,
I did a google search for
R Error: inner loop 2; cannot correct step size
and found an old R-help message that suggests the glm() algorithm cannot
converge.
https://stat.ethz.ch/pipermail/r-help/2009-December/223142.html
I get the same error message as you when I fit
Dear all,
If you know how to add a table under a plot, could you please send me your
code?
In R documentation, there is a function addtable2plot{}, do you know where
to download the function?
Thank you in advance,
Helen
[[alternative HTML version deleted]]
Dear Sir:
I am trying to plot a time series from the following code:
test - read.table(/home/wayne/inr2a.txt, header = TRUE, quote=, sep = ;)
x2 - ts(data=test, frequency = 80, start = c(2012,11), end = c(2014,5))
plot.ts(x2, xlab=Date, ylab=Inr, main=X2 - Time Series,
ylim=c(1.0,4.0),pch=16,
Hi,
the function is in the plotrix package, so you have to install and call that
package first.
After installing see example(addtable2plot).
HTH,
daniel
Feladó: r-help-boun...@r-project.org [r-help-boun...@r-project.org] ;
meghatalmaz#243;: Helen Gao
There is an addtable2plot function in the plotrix package, which is on
CRAN and can be installed using install.packages or other standard
ways of installing packages.
If you need the table to line up with parts of the plot then you could
leave extra margin area and call the axis function multiple
Hi,
if you don't have enough memory to store the entire TOM within RAM,
you cannot simply retrieve it and subset it.
There are 3 options for what you want to do:
1. If all genes are in the same block, calculate the TOM from the
block genes and subset it appropriately. This will exactly
Hello!
I'd like to illustrate the data of an csv file as a nice table and copy it
into my word-sheet. Currently, I am trying this with the xtable () function
(latex output).
Example Code:
dfchar - data.frame(Author = dat$author, Year = dat$year, Age = dat$age)
xtable(dfchar)
Now, since there
On 23/05/2014, 6:31 PM, Verena Weinbir wrote:
Hello!
I'd like to illustrate the data of an csv file as a nice table and copy it
into my word-sheet. Currently, I am trying this with the xtable () function
(latex output).
I'm not sure what you mean by copying it into your word-sheet, but latex
Hi,
Sorry, there is a mistake. XO[2,] should be:
XO[2,] - sapply(seq_along(col.tri.nb), function(i){ind1 -
as.character(ind[i]); ind2 - as.character(ind[col.tri.nb[[i]]]);
mean(abs(XO[1,ind1]-XO[1,ind2]))} )
A.K.
On Friday, May 23, 2014 12:56 PM, arun smartpink...@yahoo.com wrote:
Hi
Hi,
May be this helps:
#if the data is ordered for the TIME column as in the example
dat - read.table(text=ID TIME
1254 0
1254 1
1254 3
1254 5
1254 14
3236 0
3236 36
3236 93
1598 0
1598 0.5
1598 1
1598 2
1598 3
1598 12
1598 36
1598 75
1598 95
1598 120,sep=,header=TRUE)
dat$NewID - with(dat,
On Fri, 23 May 2014 12:19:11 PM Ruddy Kathy wrote:
Hi Guys,
I have been trying to create a 'balloon plot' using R, which is where the
points in a plot are scaled such that the size of the point (area)
represents the value.
...
Anybody got any ideas for how to change this scaling??
I
Hi all,
I was doingk-mean clusteringthrough which i
could find out each and every clusters and the contents
aroundeach cluster centroid likebelow :-
x-read.csv(normalizedata.csv, header = TRUE)#To read the dataset
km- kmeans(x,
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