Displaying 20 results from an estimated 900 matches similar to: "Error in glm(..., family=quasi(..., variance=list(...)))"
2005 Jun 16
1
mu^2(1-mu)^2 variance function for GLM
Dear list,
I'm trying to mimic the analysis of Wedderburn (1974) as cited by
McCullagh and Nelder (1989) on p.328-332. This is the leaf-blotch on
barley example, and the data is available in the `faraway' package.
Wedderburn suggested using the variance function mu^2(1-mu)^2. This
variance function isn't readily available in R's `quasi' family object,
but it seems to me
2012 Mar 14
1
Glm and user defined variance functions
Hi,
I am trying to run a generalized linear regression using a negative binomial
error distribution. However, I want to use an overdispersion parameter that
varies (dependent on the length of a stretch of road) so glm.nb will not do.
>From what I've read I should be able to do this using GLM by specifying my
own quasi family and describing the variance function using varfun, validmu,
2006 Jan 14
2
initialize expression in 'quasi' (PR#8486)
This is not so much a bug as an infelicity in the code that can easily
be fixed.
The initialize expression in the quasi family function is, (uniformly
for all links and all variance functions):
initialize <- expression({
n <- rep.int(1, nobs)
mustart <- y + 0.1 * (y == 0)
})
This is inappropriate (and often fails) for variance function
"mu(1-mu)".
2005 Jun 14
1
New Family object for GLM models...
Dear R-Users,
I wish to create a new family object based on the Binomial family. The only difference will be with the link function. Thus instead if using the 'logit(u)' link function, i plan to use '-log(i-u)'.
So far, i have tried to write the function following that of the Binomial and Negative Binomial families.
The major problem i have here is with the definition of the
2002 Feb 27
1
Bug in glm.fit? (PR#1331)
G'day all,
I had a look at the GLM code of R (1.4.1) and I believe that there are
problems with the function "glm.fit" that may bite in rare
circumstances. Note, I have no data set with which I ran into
trouble. This report is solely based on having a look at the code.
Below I append a listing of the glm.fit function as produced by my
system. I have added line numbers so that I
2007 Sep 22
0
How to explain the meaning of mu in the variance function of GLMs?
Dear R friends,
When fitting GLMs in R, we may need to specify the variance function to do
our analysis. I had thought it's the mean value, but it seems not. Could
anybody expain the correct meaning of *mu* in the variance function of
GLMs? The following content is from the R-hlep.
variance for all families other than quasi, the variance function is
determined by the family. The quasi
2007 Feb 10
2
error using user-defined link function with mixed models (LMER)
Greetings, everyone. I've been trying to analyze bird nest survival
data using generalized linear mixed models (because we documented
several consecutive nesting attempts by the same individuals; i.e.
repeated measures data) and have been unable to persuade the various
GLMM models to work with my user-defined link function. Actually,
glmmPQL seems to work, but as I want to evaluate a suite of
2015 Dec 30
1
typo in src/library/stats/man/family.Rd: names of 'validmu' and 'valideta' ??
under "Details" (version 2015-11-29 r69717; not quite cutting-edge,
but nothing has changed in src/library/stats/man/family.Rd in 5 months
[sorry for using the Github mirror, but I prefer the interface ...
<https://github.com/wch/r-source/blob/trunk/src/library/stats/man/family.Rd>])
it says:
valid.mu: logical function. Returns ?TRUE? if a mean vector ?mu? is
within the
2005 Aug 12
1
Help converting a function from S-Plus to R: family$weight
Hi all
I am converting an S-Plus function into R. The S-Plus code
uses some of the glm families, and family objects.
The family objects in S-Plus and R have many different
features, for example:
In R:
> names(Gamma())
[1] "family" "link" "linkfun" "linkinv" "variance"
[6] "dev.resids" "aic"
2005 Jun 02
1
glm with variance = mu+theta*mu^2?
How might you fit a generalized linear model (glm) with variance =
mu+theta*mu^2 (where mu = mean of the exponential family random variable
and theta is a parameter to be estimated)?
This appears in Table 2.7 of Fahrmeir and Tutz (2001) Multivariate
Statisticial Modeling Based on Generalized Linear Models, 2nd ed.
(Springer, p. 60), where they compare "log-linear model fits to
2006 May 04
1
quasi glm start values
Hi,
I'm tying to fit a glm using quasi with variance=mu(1-mu) (to try and
get "well behaved" residuals). I get an error message:
"cannot find valid starting values, please specify some".
I have tried using start= and specifying coefficients from a previous
fit (with different error structure) but get the same message.
What would be valid starting values?
I am using a
2007 Dec 05
4
coxme frailty model standard errors?
Hello,
I am running R 2.6.1 on windows xp
I am trying to fit a cox proportional hazard model with a shared
Gaussian frailty term using coxme
My model is specified as:
nofit1<-coxme(Surv(Age,cen1new)~ Sex+bo2+bo3,random=~1|isl,data=mydat)
With x1-x3 being dummy variables, and isl being the community level
variable with 4 levels.
Does anyone know if there is a way to get the standard error
2010 Jun 17
0
Modifyiing R working matrix within "gee" source code
Dear all,
I am working on modifying the R working matrix to commodate some other
correlations that not included in the package. I am having problem to locate
where the R matrix are defined for regular matrices, i.e. independence,
exchangeable, AR and unstructure. it might have something within
.C("Cgee",but don't understand it well enough to know. Can you anyone
help?
/*gee source
2003 Jan 16
3
Overdispersed poisson - negative observation
Dear R users
I have been looking for functions that can deal with overdispersed poisson
models. Some (one) of the observations are negative. According to actuarial
literature (England & Verall, Stochastic Claims Reserving in General
Insurance , Institute of Actiuaries 2002) this can be handled through the
use of quasi likelihoods instead of normal likelihoods. The presence of
negatives is not
2006 Apr 16
3
second try; writing user-defined GLM link function
I apologize for my earlier posting that, unbeknownst to me before,
apparently was not in the correct format for this list. Hopefully this
attempt will go through, and no-one will hold the newbie mistake
against me.
I could really use some help in writing a new glm link function in
order to run an analysis of daily nest survival rates. I've struggled
with this for weeks now, and can at least
2011 Nov 24
0
R-2.14.0: read.csv2 with fileEncoding="UTF-8"
Dear R-List,
I'm trying to read an UTF-8-encoded text file which works fine under
#####################################################################
### CONFIG 1
> sessionInfo()
R version 2.12.1 (2010-12-16)
Platform: i386-pc-mingw32/i386 (32-bit)
locale:
[1] LC_COLLATE=German_Germany.1252 LC_CTYPE=German_Germany.1252
[3] LC_MONETARY=German_Germany.1252 LC_NUMERIC=C
2009 Sep 08
0
RODBC version 1.3-0 crashes with systemtables using SQL server 2000
Dear all,
I need to test for the existence of an index on a table. This cannot be done with sqlPrimaryKeys as it is not a primary key. Therefore I select directly from the systemtable of SQL-Server 2000 named sysindexes. This works well with RODBC Version 1.2-5 but not with version 1.3-0.
Here is the code of the test example:
sink(file = "proto.txt", append = FALSE, type =
2009 Dec 29
1
problem reading from serial connection since 2.10.0
Dear list,
I have a balance connected to the serial port of a windows machine ("COM1") and I read the text
output of the balance with
scan("COM1", what="character", sep="\n", n=1)
after calling the previous line I press the print key on the balance which triggers sending one line
of text to the serial connection and with R 2.9.2 I get something like
Read
2009 Oct 13
2
Sweave output encoding in R-2.10.0beta on Windows (Rgui <-> Rterm)
Dear developers,
I have come across a (somewhat strange) change in the encoding of Sweave
output from R-2.9.2pat to R-2.10.0beta (apparently specific to Rgui) on
Windows installations. Of course, the NEWS file contains quite a few
changes concerning encoding, but I was not able to locate an entry which
explains the observed behaviour. I am not very familiar with
encodings/locales/codepages,
2009 Jan 30
1
Methods not loaded in R-Devel vs 2.8.1
Dear list-member,
I am currently developing a package with S4 classes. The NAMESPACE and DESCRIPTION is printed below. Within this package I have set a method "residuals" for two classes. In version 2.8.1 these two are reported whereas in R-Devel (2009-01-28 r47766). What have I missed? What has changed and how can I rectify the issue? Your help and pointers are welcome.
For 2.8.1: