Displaying 20 results from an estimated 700 matches similar to: "debugging a try() statement"
2008 Feb 15
2
help on using try() to catch an error
Dear R Users,
I have the following glm, which I am running several times in a loop
(I am not including the full code):
reduced_model <- NULL;
full_model <- NULL;
reduced_model <- try(glm.fit(X4,n,family=poisson(link="log")))
full_model <- try(glm.fit(X5,n,family=poisson(link="log")));
On some occasions, an error is produced, which is why I have attempted
to work
2008 Jan 25
1
increasing speed for permutations of glm
Dear R Programmers,
I am trying to run a Poisson regression on all pairs of variables in a data
set and
obtain the permutation distribution. The number of pairs is around 100000.
It seems my code will take weeks to run, unless I try something else.
Could you give me any suggestions on how to improve the speed of the
code below, or any general suggestions on how I may accomplish this task.
Thanks
2010 Sep 22
3
extracting random effects from model formula
Hi R-users
I would like to extract the random effects ("1|SITE", "1+SPECIES|SITE"
and "BA|SITE") from this model formula:
Full_model <- formula (VAR ~ (1|SITE) + (1+SPECIES|SITE) + (BA|SITE) +
HEIGHT + COND + NN_DIST)
I tried:
terms(Full_model)
labels(terms(Full_model))
but I could not distinguish between random and fixed effects.
thanks
2011 May 08
1
Hosmer-Lemeshow 'goodness of fit'
I'm trying to do a Hosmer-Lemeshow 'goodness of fit' test on my logistic
regression model.
I found some code here:
http://sas-and-r.blogspot.com/2010/09/example-87-hosmer-and-lemeshow-goodness.html
The R code is above is a little complicated for me but I'm having trouble
with my answer:
Hosmer-Lemeshow: p=0.6163585
le Cessie and Houwelingen test (Design library): p=0.2843620
2008 Aug 23
3
graphs for pretest data
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 types of segments for men and women.
Example data:
menpre <- c(43,42,26,39,60,60,46)
menpost <- c(40,41,36,42,54,58,43)
womenpre <-
2008 Jul 09
3
randomly select duplicated entries
Using this data as an example
dat <- read.table(textConnection("Id myvar
12 1
12 2
12 6
34 9
34 4
34 8
65 15
65 23"), header = TRUE)
closeAllConnections()
how can I create another data set that does not have duplicate entries
for 'Id', but the included values
are randomly selected from the available ones.
Thanks!
Juliet
2009 Mar 07
6
using a noisy variable in regression (not an R question)
Hi, This is not an R question, but I've seen opinions given on non R
topics, so I wanted
to give it a try. :)
How would one treat a variable that was measured once, but is known to
fluctuate a lot?
For example, I want to include a hormone in my regression as an
explanatory variable. However, this
hormone varies in its levels throughout a day. Nevertheless, its levels differ
substantially
2010 Jul 15
2
replace negative numbers by smallest positive value in matrix
Hi Group,
I have a matrix, and I would like to replace numbers less than 0 by
the smallest minimum number. Below is an
small matrix, and the loop I used. I would like to get suggestions on
the "R way" to do this.
Thanks,
Juliet
# example data set
mymat <- structure(c(-0.503183609420937, 0.179063475173256, 0.130473004669938,
-1.80825226960127, -0.794910626384209, 1.03857280868547,
2009 Mar 02
3
ways to put multiple graphs on single page (using ggplot2)
Hi, Here are three plots:
library(ggplot2)
data(diamonds)
randind <- sample(nrow(diamonds),1000,replace=FALSE)
dsmall <- diamonds[randind,]
qplot(carat, data=dsmall, geom="histogram",binwidth=1)
qplot(carat, data=dsmall, geom="histogram",binwidth=.1)
qplot(carat, data=dsmall, geom="histogram",binwidth=.01)
What are ways to put these three plots on a single
2012 Mar 21
2
glmnet: obtain predictions using predict and also by extracting coefficients
All,
For my understanding, I wanted to see if I can get glmnet predictions
using both the predict function and also by multiplying coefficients
by the variable matrix. This is not worked out. Could anyone suggest
where I am going wrong?
I understand that I may not have the mean/intercept correct, but the
scaling is also off, which suggests a bigger mistake.
Thanks for your help.
Juliet Hannah
2008 Sep 22
2
adding layers in ggplot2 (data and code included)
Here is some sample data:
mydata <- read.table(textConnection("Est Group Tri
0 0 4.639644
1 0 4.579189
2 0 4.590714
0 1 4.443696
1 1 4.588243
2 1 4.650505
0 2 4.296608
1 2 4.826036
2 2 4.765386"),header=TRUE);
closeAllConnections();
I can form two plots,
2009 Apr 20
3
what is R best for; what should one learn in addition to R
Hi,
I've been working with R for a couple of years, and I've
been able to get most of the things done that I needed (sometimes in
a roundabout way). A few experienced statisticians told me that
R is best for interactive data analysis, but for large-scale
computations, one needs something else.
I understand that this all depends on what you are trying to
accomplish, and R offers many ways
2009 Jan 24
2
how to prevent duplications of data within a loop
Hi All,
I had posted a question on a similar topic, but I think it was not
focused. I am posting a modification that I think better accomplishes
this.
I hope this is ok, and I apologize if it is not. :)
I am looping through variables and running several regressions. I have
reason to believe that the data is being duplicated because I have
been
monitoring the memory use on unix.
How can I avoid
2008 Nov 19
2
ggplot2; dot plot, jitter, and error bars
With this data
x <- c(0,0,1,1,2,2)
y <- c(5,6,4,3,2,6)
lwr <- y-1
upr <- y+1
xlab <- c("Low","Low","Med","Med","High","High")
mydata <- data.frame(x,xlab,y,lwr,upr)
I would like to make a dot plot and use lwr and upr as error bars.
Above 0=Low. I would like there to be
some space between the 5 and the 6 corresponding
2007 Sep 24
2
Getting host IP address?
Hi,
I''m gradually moving my site''s config over to Puppet (still in the
testing phases at the moment!).
Is there any way of getting/referring to a host''s IP address? I want to
set up iptables via Puppet, & can use a template but need to get the
IP address into the template somehow.
I''m getting my node definitions (& thus classes) from LDAP. I
2007 Nov 13
6
Facter and arrays
Hi,
Is it possible to have an array as the output of a custom fact? And
then to pass it into a template in Puppet?
I currently have a fact that looks like this:
Facter.add("exports") do
setcode do
case Facter.hostname
when (/thishost/i):
[ "/local", "/local2" ]
end
end
end
& a template like this:
<%
2009 Feb 08
2
how to make this qq plot in lattice and/or ggplot2
Hi Group,
Here is some data.
p <- runif(1000) # sample data
groups <- rep(c(1,2),each=500) #conditioning variable
mydata <- cbind(p,groups)
n <- length(p)
u <- (1:n)/(n + 1) # uniform distribution reference for qqplot
logp <- -log(p,base=10)
logu <- -log(u,base=10)
qqplot(logp,logu)
How can I make the above qqplot in lattice and/or ggplot2. The sample
is uniform, and I take
2010 Jan 30
2
convert data frame of values into correlation matrix
Hi Group,
Consider a data frame like this:
mylabel1 <- rep(c("A","B","C"),each=3)
mylabel2 <- rep(c("A","B","C"),3)
corrs <- c(1,.8,.7,.8,1,.7,.7,.7,1)
myData <- data.frame(mylabel1,mylabel2,corrs)
myData
mylabel1 mylabel2 corrs
1 A A 1.0
2 A B 0.8
3 A C 0.7
4 B
2011 Aug 11
3
improve formatting of HTML table
I am trying to improve the look of an HTML table for a report (that
needs to be pasted into Word).
Here is an example.
table2 <- structure(c(26L, 0L, 40L, 0L, 10L, 0L, 0L, 188L, 0L, 281L, 0L,
0L, 0L, 0L, 0L, 0L, 0L, 4L), .Dim = c(6L, 3L), .Dimnames = structure(list(
myvar = c("Don't know", "Somewhat likely", "Somewhat unlikely",
"Very
2007 Oct 09
2
Failure to find definition
Hi,
I''m trying to set up apache2 under puppet, as in this recipe:
http://reductivelabs.com/trac/puppet/wiki/Recipes/DebianApache2Recipe
I have a file "apache2.pp" as shown there, and then a webserver.pp file
(see below).
On running puppetd on the client, I get this message:
err: Could not retrieve configuration: Could not find definition site in
file