Displaying 20 results from an estimated 5000 matches similar to: "Latest revision of lme4 requires 'Matrix' >= 0.995.2 but that version is not available on CRAN"
2006 Jan 30
1
weights argument in the lmer function in lme4
I suspect the weights argument is not having any effect.
Package: Matrix
Version: 0.995-2
Date: 2006-01-19
Beginning with this:
Browse[1]> resp.lmer <- lmer(SensSSC ~ Block + Season + (1 | Plot) + (1 | Ma) + (1 | Pa) +
+ (1 | MaPa), weights = SensSSC.N, data = xx)
I group the output into a table with my ran.eff function and get this:
2007 Apr 03
2
HPDinterval problem
Hi,
Can anyone tell me why I am not getting the correct intervals for
fixed effect terms for the following generalized linear mixed model
from HPDinterval:
> sessionInfo()
R version 2.4.1 (2006-12-18)
i386-pc-mingw32
locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
States.1252;LC_MONETARY=English_United
States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
2006 Jan 27
2
lme4_0.995-2/Matrix_0.995-4 upgrade introduces error messages (change management)
I'll address two issues. The first is today's error message and the other is change management for contributed packages on CRAN.
TODAY'S ERROR MESSAGE
I switched from the 0.995-1 versions of lme4 and Matrix to those referenced in the subject line this afternoon. Prior to using these packages on anything else, I applied them to code that 'worked' (provided numerical results
2006 Mar 16
1
lme4/Matrix: Call to .Call("mer_update_y"...) and LMEoptimize gives unexpected side effect...
Dear all
I want to compute Monte Carlo p-values in lmer-models based on sampled data sets. To speed up calculations, I've tried to use internal functions from the Matrix package (as suggested ealier on the list by Doug Bates).
So I did:
fm2 <- lmer(resistance ~ ET + position + (1|Grp), Semiconductor,method='ML')
simdata<-simulate(fm2,nsim=1)
ynew <- simdata[,1]
mer
2006 Sep 11
3
Extracting overdispersion estimates from lmer amd glm objects
Dear list,
I am needing to extract the estimate of overdispersion (deviance / residual degrees of freedom or c-hat) from multiple model objects - so they can then be used to compare the extent of overdispersion among alternative models as well as calculate qausi-AIC values. I have been unable to do this, despite consulting a number of manuals and searching the R-help. I am imaging that in
2006 Mar 31
1
loglikelihood and lmer
Dear R users,
I am estimating Poisson mixed models using glmmPQL
(MASS) and lmer (lme4). We know that glmmPQL do not
provide the correct loglikelihood for such models (it
gives the loglike of a 'pseudo' or working linear
mixed model). I would like to know how the loglike is
calculated by lmer.
A minor question is: why do glmmPQL and lmer give
different degrees-of-freedom for the same
2006 Apr 20
1
lmer{lme4}, poisson family and residuals
Hello,
I’m trying to fit the following model:
Dependent variable: MAXDEPTH (the maximum depth reached by a penguin during
a given dive)
Fixed effects: SUCCESSMN (an index of the “individual quality” of a bird),
STUDYDAY (the day of the study, from -5 to 20, with 0=Dec 20), and the
interaction SUCCESSMN*STUDYDAY
Random effect: BIRD (the bird id, as each bird is performing several dives)
2006 Jan 12
4
CRAN versions of lme4/Matrix don't appear to work with R 2.1.1
I am currently using R 2.1.1 under Windows and I do not seem to be able
to load the current versions of lme4/Matrix. I have run
'update.packages.' I understand this is still experimental software but
I would like access to a working version.
Thanks.
Chuck
R Output:
> library(lme4)
Loading required package: Matrix
Error in lazyLoadDBfetch(key, datafile, compressed, envhook) :
2010 Jul 14
2
ver 2.11.1 from xterm on Mac without lme4
Hi,
I just installed version 2.11.1 on my Mac OS X 10.5.2. When I try
running R from my xterm, I get the following error:
Error in loadNamespace(name) : there is no package called 'lme4'
Fatal error: unable to restore saved data in .RData
I am returned to the terminal prompt and can not run R. I can open this
version of R from the R console and tried installing the lme4 source
2010 Feb 28
1
ubuntu hardy heron and lme4
I have R version 2.10.1 (2009-12-14) installed on Ubuntu HH (version 8.04)
I installed lme4 from the Ubuntu respository. When I executed the library(lme4)
command, R responds that lme4.so was not found.
I then uninstalled lme4 and tried again from cran. When the program tried to
compile, there was a message that -llapack could not be found, so the package
failed to install.
If I execute the
2004 Jul 23
2
lme4 groupedData is missing
help.search("groupedData") says that it's part of the lme4 package, but it
appears not to be there (details below). Is this because lme4 is new and
(perhaps) still under development?
> update.packages()
trying URL `http://cran.r-project.org/bin/windows/contrib/1.9/PACKAGES'
Content type `text/plain; charset=iso-8859-1' length 19113 bytes
opened URL
downloaded 18Kb
>
2006 Mar 29
1
lmer multilevel
My question relates to problems that I'm having matching lme and lmer
examples in P&B.
using Matix 0.995
In the Oxide example in p167-170 I can't get the level 2 coefficient
estimates to match
the fm1Oxide model in lme is
data(Oxide,package="nlme")
lme(Thickness~1,Oxide)
which I translate in Lmer syntax to
fm3Oxide<-lmer(Thickness~
2005 Jun 13
5
slow loading with lme4
it takes a long time to load the lme4 package.anyone else encounter this problem?
> system.time(library(lme4))
佋佖伻侂佇佽佉仾伒伳伋佁伡伃伆侟仯伜Matrix
佋佖伻侂佇佽佉仾伒伳伋佁伡伃伆侟仯伜lattice
[1] 19.90 0.30 25.56 NA NA
> version
_
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status Patched
major 2
minor
2008 Oct 22
1
Think I'm sure, but confirm: lme4 vs. nlme
The impression I get from the list and the references I've perused is
that nlme is being phased out in favor of lme4, but lme4 still doesn't
have a complete feature set yet.
What I'm still fuzzy on, being a relative R newbie, is:
(a) what features in nlme are currently missing in lme4
(b) what's the projected time frame on getting them implemented.
If anyone can answer my naive
2009 Sep 18
1
Unable to install lme4
I am unable to install package lme4, after several attempts to do so using various repository URLs.
Just to make sure everything works fine with proxy, connection, etc, I installed ggplot2 and it worked fine.
I am using command
install.packages("lme4", lib="/myRlibs"),
optionally using contrib argument with different URLs.
Error message the I get is
Warning message;
In
2011 Dec 12
2
Problema para cargar "lme4" en R version 2.14.0
Hola,
Tenía una versión anterior de R, la 2.10.1 en la cual podía cargar perfectamente el paquete "lme4". Actualicé la versión del R a 2.14.0 y aún volviendo a descargar la nueva versión del paquete mencionado cuando intento cargarlo me da el siguiente error :
> library(lme4)
Error: package ‘lme4’ is not installed for ''arch=i386''
Hay alguna solución para esto o
2009 Jun 10
1
Unable to load package:lme4 [ Ubuntu 9.04 ]
Hi folks,
When I try to load package 'lme4' on my Linux box (64-bit Ubuntu
9.04), I get the following error:
-------------------------------------
> library(lme4)
Error in dyn.load(file, DLLpath = DLLpath, ...) :
function 'cholmod_start' not provided by package 'Matrix'
Error: package/namespace load failed for 'lme4'
------------------------------------
I
2012 Aug 29
1
lme4 installation
Being rather inept at all things Linux, I paid a consultant
to fix some things on my computer,? Unforntately, good
help is hard to find.? Here's where I am:
?
...
Loading required package: Matrix
Loading required package: lattice
Error in dyn.load(file, DLLpath = DLLpath, ...) :
? function 'cholmod_l_start' not provided by package 'Matrix'
Error: package/namespace load failed
2004 Aug 27
2
degrees of freedom (lme4 and nlme)
Hi, I'm having some problems regarding the packages
lme4 and nlme, more specifically in the denominator
degrees of freedom. I used data Orthodont for the two
packages. The commands used are below.
require(nlme)
data(Orthodont)
fm1<-lme(distance~age+ Sex,
data=Orthodont,random=~1|Subject, method="REML")
anova(fm1)
numDF DenDF F-value p-value
(Intercept) 1
2005 Aug 12
1
Problem with lme4
Hi,
I cannot seem to get lme4 to work. I have installed the lme4 and Matrix
package with apt-get. and both can be found in /usr/lib/R/site-library.
When I tried an example for lmer, R could not find the function lmer(),
> library(lme4)
Attaching package: 'lme4'
The following object(s) are masked from package:nlme :
getCovariateFormula getResponseFormula