Displaying 20 results from an estimated 1000 matches similar to: "Error in anova(): objects must inherit from classes"
2004 Nov 26
1
help with glmmPQL
Hello:
Will someone PLEASE help me with this problem. This is the third time
I've posted it.
When I appply anova() to two equations estimated using glmmPQL, I get a
complaint,
> anova(fm1, fm2)
Error in anova.lme(fm1, fm2) : Objects must inherit from classes "gls",
"gnls" "lm","lmList", "lme","nlme","nlsList", or
2004 Nov 25
0
MASS problem -- glmmPQL and anova
Hello:
I am really stuck on this problem. Why do I get an error message with
anova() when I compare these two equations?
Hope someone can help.
ANDREW
____________________________
> fm1 <- glmmPQL(choice ~ day + stereotypy,
+ random = ~ 1 | bear, data = learning, family = binomial)
> fm2 <- glmmPQL(choice ~ day + envir + stereotypy,
+ random = ~ 1 |
2004 Nov 24
0
problem with anova and glmmPQL
Hello:
I am getting an error message when appplying anova() to two equations
estimated using glmmPQL. I did look through the archives but didn't
finding anything relevant to my problem. The R-code and results follow.
Hope someone can help.
ANDREW
____________________________
> fm1 <- glmmPQL(choice ~ day + stereotypy,
+ random = ~ 1 | bear, data = learning, family =
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
2008 Feb 26
2
AIC and anova, lme
Dear listers,
Here we have a strange result we can hardly cope with. We want to
compare a null mixed model with a mixed model with one independent
variable.
> lmmedt1<-lme(mediane~1, random=~1|site, na.action=na.omit, data=bdd2)
> lmmedt9<-lme(mediane~log(0.0001+transat), random=~1|site,
na.action=na.omit, data=bdd2)
Using the Akaike Criterion and selMod of the package pgirmess
2002 Dec 15
2
Interpretation of hypothesis tests for mixed models
My question concerns the logic behind hypothesis tests for fixed-effect
terms in models fitted with lme. Suppose the levels of Subj indicate a
grouping structure (k subjects) and Trt is a two-level factor (two
treatments) for which there are several (n) responses y from each
treatment and subject combination. If one suspects a subject by
treatment interaction, either of the following models seem
2012 Feb 14
2
how to test the random factor effect in lme
Hi
I am working on a Nested one-way ANOVA. I don't know how to implement
R code to test the significance of the random factor
My R code so far can only test the fixed factor :
anova(lme(PCB~Area,random=~1|Sites, data = PCBdata))
numDF denDF F-value p-value
(Intercept) 1 12 1841.7845 <.0001
Area 1 4 4.9846 0.0894
Here is my data and my hand
2009 Apr 05
4
extract the p value of F statistics from the lm class
Dear R users
I have run an regression and want to extract the p value of the F
statistics, but I can find a way to do that.
x<-summary(lm(log(RV2)~log(IV.m),data=b))
Call:
lm(formula = log(RV2) ~ log(IV.m), data = b[[11]])
Residuals:
Min 1Q Median 3Q Max
-0.26511 -0.09718 -0.01326 0.11095 0.29777
Coefficients:
Estimate Std. Error t value Pr(>|t|)
2006 Feb 23
2
Strange p-level for the fixed effect with lme function
Hello,
I ran two lme analyses and got expected results. However, I saw
something suspicious regarding p-level for fixed effect. Models are the
same, only experimental designs differ and, of course, subjects. I am
aware that I could done nesting Subjects within Experiments, but it is
expected to have much slower RT (reaction time) in the second
experiment, since the task is more complex, so it
2003 Apr 09
1
[OFF] Nested or not nested, this is the question.
Hi,
sorry by this off.
I'm still try to understand nested design.
I have the follow example (fiction):
I have 12 plots in 4 sizes in 3 replicates (4*3 = 12)
In each plot I put 2 species (A and B) to reproduce.
After a period I make samples in each board and count the number of
individuals total (tot) and individuals A and B (nsp). Others individuals
excepts A and B are in total of
2007 Nov 01
2
F distribution from lme()?
Dear all,
Using the data set and code below, I am interested in modelling how egg
temperature (egg.temp)
is related to energy expenditure (kjday) and clutch size (treat) in
incubating birds using the
lme-function. I wish to generate the F-distribution for my model, and have
tried to do so using
the anova()-function. However, in the resulting anova-table, the parameter
kjday has gone from
being
2005 Mar 09
1
multiple comparisons for lme using multcomp
Dear R-help list,
I would like to perform multiple comparisons for lme. Can you report to me
if my way to is correct or not? Please, note that I am not nor a
statistician nor a mathematician, so, some understandings are sometimes
quite hard for me. According to the previous helps on the topic in R-help
list May 2003 (please, see Torsten Hothorn advices) and books such as
Venables &
2003 Jul 27
2
continuous independent variable in lme
Dear All,
I am writing to ask a clarification on what R, and in particular lme, is
doing.
I have an experiment where fly wing area was measured in 4 selection lines,
measured at 18 and 25 degrees. I am using a lme model because I have three
replicated per line (coded 1:12 so I need not use getGroups to creat an
orederd factor).
The lines are called: "18"; "25";
2010 Sep 22
1
Sieve autoreply woes on test setup
Hi,
I have been testing sieve in my setup with qmail-ldap and deliver on a LAN
with an artificial domain name. Everything seems to be working as expected,
except in cases when autoreplies (vacation, reject messages) need to be
tested.
The domain name is vmint, and dawnone is the hostname on which mail server
is setup, so a users have address like cot at vmint, cute at vmint and dove at vmint
*
2005 Jun 08
0
bug in predict.lme?
Dear All,
I've come across a problem in predict.lme. Assigning a model formula to a variable and then using this variable in lme (instead of typing the formula into the formula part of lme) works as expect. However, when performing a predict on the fitted model I gan an error messag - predict.lme (but not predictlm) seems to expect a 'properly' typed in formula and a cannot extract
2019 Jan 17
3
long-standing documentation bug in ?anova.lme
tl;dr anova.lme() claims to provide sums of squares, but it doesn't. And
some names are misspelled in ?lme. I can submit all this stuff as a bug
report if that's preferred.
?anova.lme says:
When only one fitted model object is present, a data frame with
the sums of squares, numerator degrees of freedom, denominator
degrees of freedom, F-values, and P-values
The output of
fm1
2005 Jan 03
1
different DF in package nlme and lme4
Hi all
I tried to reproduce an example with lme and used the Orthodont
dataset.
library(nlme)
fm2a.1 <- lme(distance ~ age + Sex, data = Orthodont, random = ~ 1 | Subject)
anova(fm2a.1)
> numDF denDF F-value p-value
> (Intercept) 1 80 4123.156 <.0001
> age 1 80 114.838 <.0001
> Sex 1 25 9.292 0.0054
or alternatively
2007 Jun 25
1
degrees of freedom in lme
Dear all,
I am starting to use the lme package (and plan to teach a course based on it
next semester...). To understand what lme is doing precisely, I used balanced
datasets described in Pinheiro and Bates and tried to compare the lme outputs
to that of aov. Here is what I obtained:
> data(Machines)
> summary(aov(score~Machine+Error(Worker/Machine),data=Machines))
Error: Worker
2009 Jan 12
1
help on nested mixed effects ANOVA
Hello,
I am trying to run a mixed effects nested ANOVA but none of my codes
are giving me any meaningful results and I am not sure what I am doing
wrong. I am a new user on R and would appreciate some help.
The experimental design is that I have some frogs that have been
exposed to three acoustic Treatments and I am measuring neural
activity (egr), in 12 brain regions. Some frogs also called
2009 Aug 14
4
Redirecting mail gives 'mail forwarding loop' to the sender - calling for sieve help
Greetings, i am testing:
- dovecot-1.2-sieve-0.1.11
- dovecot 1.2.3
- dovecot-1.2-managesieve-0.11.8 (with patch)
I am trying to use sieve_after to execute some redirection of mails.
I have put in the after script:
require "include";
require "fileinto";
if header :contains ["To","Cc"] "userA at acasalud.com.ar"
{
keep;
redirect