Displaying 20 results from an estimated 1000 matches similar to: "bayesmix - What is or where can I find JAGS executable?"
2011 Sep 01
3
betareg question - keeping the mean fixed?
Hello,
I have a dataset with proportions that vary around a fixed mean, is it
possible to use betareg to look at variance in the dispersion parameter
while keeping the mean fixed?
I am very new to R but have tried the following:
svec<-c(qlogis(mean(data1$scaled)),0,0,0)
f<-betareg(scaled~-1 | expt_label + grouped_hpi, data=data1, link.phi="log",
2012 Jan 13
1
R2jags update, jags.parallel
Anyone used jags.parallel in latest version of R2jags?
Ubuntu Oneiric, just ran updates in R to get latest R2jags package which
supposedly has added jags.parallel command to send chains to multiple
cores ... but when I submit, I get:
test <- jags.parallel(d, inits, param, model.file="rats.bug",
n.chains=3, n.iter=2000)
Error: could not find function
2011 Sep 10
1
dgamma in jags within r
I define priors in jags within r using a gamma distribution. I would
like to control the shape but I have problems. Any help will be usefull.
From help of dgamma
___________________
The Gamma distribution with parameters shape = a and scale = s has density
f(x)= 1/(s^a Gamma(a)) x^(a-1) e^-(x/s)
and rate=1/scale
From jags user manual
____________________
dgamma(r, mu) has a density of
2010 Aug 30
1
R crashes when communicating with JAGS
Dear all,
I have a question regarding using JAGS and R. My problem is that every
single time I want to call JAGS from R the latter crashes (i.e. it
turns pale and the Windows tells me "R has stopped working".
Strangely, if there is a mistake in my jags code, this will be
reported without a crash. Only when the code is right and the model
should start to run, R stops working. I already
2010 Aug 02
2
Including a text file (JAGS model) in an R package
Hello,
I can`t figure out how to include a text file for use in an example in the .Rd help files of an R package I am writing.
I want the examples section of one help file to look like this:
\examples{
# Load the JAGS model
mod <- jags.model("model.txt")
}
The function jags.model tries to read in the file model.txt. So far every time I run R CMD check, I get an error message:
2011 Mar 14
1
JAGS/BUGS on gene expression data
Has anybody had issues running MCMC (either BUGS or JAGS) on data sets of
this magnitude (ie 30k x 20-30). I've been trying to run a hierarchical
random effects model on expression data but R completely stalls out on jobs
run on 32bit R on our server (doesn't respond...then eventually crashes out
with an exception fault). Would using 64bit R help with JAGS? (As far as I
know there's
2011 Aug 11
1
R crashes when communicating with JAGS
There is a thread on this topic already:
http://finzi.psych.upenn.edu/Rhelp10/2010-August/250934.html
I'm rather mystified by a similar problem and wondering whether I've
overlooked something obvious. I'm running with latest versions of R and
all packages, and latest version of JAGS running under Windows 7.
Here's the problem. I have some source code. It's given below -
2006 Oct 09
1
dump (PR#9282)
Full_Name: Ricardo Ehlers
Version: 2.4.0
OS: Linux
Submission from: (NULL) (200.138.34.134)
The dump function is outputing something different from previous versions. For
example
> a <- c(1,2,3); dump('a',file='test')
now results in `a` <- c(1,2) instead of "a" <- c(1,2) in the file 'test'
This prevents using the bayesmix package and running JAGS
2011 Apr 18
3
Request for jags package to be added to CRAN Debian/Ubuntu archives
May I request that Dirk's package for jags be added to the CRAN
archives for Debian and Ubuntu?
Installing the rjags package for R requires specific versions of jags
to be present on the system. The current version of rjags requires
jags version 2.2.0 or later but the version on the Ubuntu archives at
Canonical (i.e. not the CRAN archives) is 2.1.0-2
I can always install Dirk's package
2008 Jun 25
1
dgamma in WinBUGS and JAGS (rjags)
Hello,
In WinBUGS 1.4 manual
(http://www.mrc-bsu.cam.ac.uk/bugs/winbugs/manual14.pdf), the gamma
density is presented as dgamma(r,mu) where r and mu are the shape and
rate parameters, respectively. In JAGS (rjags) manual version 1.0.2,
May 9, 2008 (http://www-fis.iarc.fr/~martyn/software/jags/jags_user_manual.pdf),
on page 26 the gamma density is presented as dgamma(mu,r) instead of
dgamma(r,mu).
2012 Jan 23
1
Jags problem
Hi, all:
I met "Non-conforming parameters for function %*%" problem, when I run the
Jags model in R.
My model is like this:
model{
for(i in 1:n){
for(j in 1:t[i]){
et[i,j]<-yt[i,j]-beta0+betax*xt[i,j]+betat*t[i,j]
}
for(a in 1:t[i]){
for(b in 1:t[i]){
sigma[i,a,b]<-pow(rho0,abs(t[a]-t[b]))
}
}
phi[i]<-
2010 Nov 09
1
jags error message
Could anyone give me some clues as to the best way to debug this error message? I think it is from the passing of variables back to R from the jags function which does Bayesian fitting. The curious part for me is that the error messages seem random, yet the input data are always the same. Any suggestions most welcome.
Thanks
J
Compiling model graph
Resolving undeclared variables
2011 Sep 12
1
findFreqTerms vs minDocFreq in Package 'tm'
I am using 'tm' package for text mining and facing an issue with finding the
frequently occuring terms. From the definition it appears that findFreqTerms
and minDocFreq are equivalent commands and both tries to identify the
documents with terms appearing more than a specified threshold. However, I
am getting drastically different results with both. I have given the results
from both the
2009 Feb 23
1
New package: exams - Automatic Generation of Standardized Exams
Dear useRs,
the new R package exams provides Sweave-based automatic generation of
exams with multiple-choice questions and arithmetic problems. The
package is available from CRAN:
http://CRAN.R-project.org/package=exams
It includes a vignette giving an overview of the main design aims and
principles as well as strategies for adaptation and extension.
Hands-on illustrations - based on example
2009 Feb 23
1
New package: exams - Automatic Generation of Standardized Exams
Dear useRs,
the new R package exams provides Sweave-based automatic generation of
exams with multiple-choice questions and arithmetic problems. The
package is available from CRAN:
http://CRAN.R-project.org/package=exams
It includes a vignette giving an overview of the main design aims and
principles as well as strategies for adaptation and extension.
Hands-on illustrations - based on example
2011 Mar 01
1
Problem on flexmix when trying to apply signature developed in one model to a new sample
Problem on flexmix when trying to apply signature developed in one model to a new sample.
Dear
R Users, R Core Team,
I have a problem when trying to know the
classification of the tested cases using two variables with the function of flexmix:
After importing the database and creating
a matrix:
BM<-cbind(Data$var1,Data$var2)
I see that the best model has 2 groups and
use:
ex2
2009 Oct 07
1
Which JAGS interface to use?
Frank (or anyone else), can you offer any comments comparing runjags,
R2jags, rjags ?
I couldn't find any vignettes, nothing except a brief mention on Task Views.
Kevin
On Wed, Oct 7, 2009 at 7:48 AM, Frank E Harrell Jr <f.harrell@vanderbilt.edu
> wrote:
> Have you tried the rjags package which uses the jags system? It is much
> more integrated into R and works quite well.
2014 Apr 02
1
RJAGS Installation Issues
Hello,
I am trying to install rjags on R 3.0.0 that is running on CentOS 6.4. Jags
is installed and seems to be working correctly.
I get the following error when trying to install from source or CRAN,
configure: error: "Problem with header file /usr/include/JAGS/Console.h "
See `config.log' for more details
JAGS was intalled with an rpm. Does not look like the rpm included
2010 May 04
1
errors when installing rjags
Hi,
With the sid package jags (2.0.0-1) and r-base-core (2.11.0-1), I cannot
install package rjags anymore (this used to work at some point; can't
recall exactly at what R/JAGS versions):
---<--------------------cut here---------------start------------------->---
R> install.packages("rjags", configure.args="--with-jags-modules=/usr/lib/JAGS/modules-2.0.0")
2011 Jul 15
0
JAGS 3.0 and the Ubuntu repositories: A fix for jrags users
Ubuntu R users,
Early this month, version 3.0 of JAGS was released on its Sourceforge
page. Dirk Eddelbuettel and I quickly rolled up packages for Debian and
Ubuntu, respectively. If you are an Ubuntu user who utilizes my
Launchpad PPA for your R related .deb files, JAGS was updated automatically.
The downside to this is that JAGS 3.0 is not compatible with the R
package rjags, also found