similar to: About object of class mle returned by user defined functions

I'm attempting to do model selection with AIC, using a glm and a lognormal distribution, but: fit1<-glm(BA~Year,data=pdat.sp1.65.04, family=gaussian(link="log")) ## gives the same result as either of the following: fit1<-glm(BA~Year,data=pdat.sp1.65.04, family=gaussian) fit1<-lm(BA~Year,data=pdat.sp1.65.04) fit1 #Coefficients: #(Intercept) Year2004 # -1.6341

Thanks for the reproducable example. I can confirm that it fails on my machine using survival 2-37.5, the next soon-to-be-released version, The issue is with NextMethod, and my assumption that the called routine inherited everything from the parent, including the environment chain. A simple test this AM showed me that the assumption is false. It might have been true for Splus. Working this

Hi I have the following formula (I hope it is clear - if no, I can try to do better the next time) h(x, a, b) = integral(0 to pi/2) ( ( integral(D/sin(alpha) to Inf) ( ( f(x, a, b) ) dx ) dalpha ) and I want to do an mle with it. I know how to use mle() and I also know about integrate(). My problem is to give the parameter values a and b to the

Dear friends, Sorry for this somewhat generically titled posting but I had a question with using contrasts in a manova context. So here is my question: Suppose I am interested in doing inference on \beta in the case of the model given by: Y = X %*% \beta + e where Y is a n x p matrix of observations, X is a n x m design matrix, \beta is m x p matrix of parameters, and e is a

R 2.9.1 Windows XP I am fitting a random effects ANOVA with two factors Group which has two levels and Time which has three levels: fita<-lme(Post~Time+factor(Group)+factor(Group)*Time, random=~1|SS,data=blah$alldata) I want to get the omnibus significance tests for each factor and the interaction. I believe I can get the omnibus test for the interaction by running the model:

Daniel, When Group is entered as a factor, and the factor has two levels, the ANOVA table gives a p value for each level of the factor. What I am looking for is the omnibus p value for the factor, i.e. the test that the factor (with all its levels) improves the prediction of the outcome. You are correct that normally one could rely on the fact that the model

The mle2 function (bbmle library) gives an example something like the following in its help page. How do I access the coefficients, standard errors, etc in the summary of "a"? > x <- 0:10 > y <- c(26, 17, 13, 12, 20, 5, 9, 8, 5, 4, 8) > LL <- function(ymax=15, xhalf=6) + -sum(stats::dpois(y, lambda=ymax/(1+x/xhalf), log=TRUE)) > a <- mle2(LL,

On Mon, 18 Jan 2016, Ethy H. Brito wrote: >> how to flush user input before READ()? How about a read() to a dummy variable with a 1 second timeout to consume the octothorpe and password? -- Thanks in advance, ------------------------------------------------------------------------- Steve Edwards sedwards at sedwards.com Voice: +1-760-468-3867 PST

Dear list members I have a doubt on how p-values for t-statistics are calculated in the summary of Linear Models. Here goes an example: x <- rnorm(100,50,10) y <- rnorm(100,0,5) fit1<-lm(y~x) summary(fit1) summary(fit1)$coef[2] # b summary(fit1)$coef[4] # Std. Error summary(fit1)$coef[6] # t-statistic summary(fit1)$coef[8] # Pr(>|t| summary(fit1)$df [2] # degrees of freedom #

Hi all I'am trying to list the shares of our W2K server and got this error message. $ smbclient -L cvl added interface ip=192.168.100.1 bcast=255.255.255.255 nmask=0.0.0.0 session request to CVL failed (Called name not present) Password: Anonymous login successful Domain=[CVL-SERVER-1] OS=[Windows 5.0] Server=[Windows 2000 LAN Manager] tree connect failed:

Dear All Why NAT rules stays valid even if I flush nat anf table chains?? I have: iptables -P FORWARD DROP iptables -A FORWARD -m state --state ESTABLISHED,RELATED -j ACCEPT iptables -A FORWARD -s SOME_IP -d SOME_BCP_5_IP --dport 1234 -j ACCEPT iptables -i nat -A PREROUTING -s SOME_IP -d MY_INTERNET_IP \\ --dport 1234 -j DNAT --to-destination SOME_BCP_5_IP The conection is

Dear R users, Could somebody please help me to find a way of comparing nonlinear, non-nested models in R, where the number of parameters is not necessarily different? Here is a sample (growth rates, y, as a function of internal substrate concentration, x): x <- c(0.52, 1.21, 1.45, 1.64, 1.89, 2.14, 2.47, 3.20, 4.47, 5.31, 6.48) y <- c(0.00, 0.35, 0.41, 0.49, 0.58, 0.61, 0.71, 0.83, 0.98,

Dear R Helpers, I have noticed that when I use lmer to analyse data, the summary function gives different values for the AIC, BIC and log-likelihood compared with the anova function. Here is a sample program #make some data set.seed(1); datx=data.frame(array(runif(720),c(240,3),dimnames=list(NULL,c('x1','x2','y' )))) id=rep(1:120,2); datx=cbind(id,datx) #give x1 a

Hi, I am trying to do logistic regression for data of 104 patients, which have one outcome (yes or no) and 15 variables (9 categorical factors [yes or no] and 6 continuous variables). Number of yes outcome is 25. Twenty-five events and 15 variables mean events per variable is much less than 10. Therefore, I tried to analyze the data with penalized regression method. I would like please some of the

Hi, I am trying to construct a svmpoly model using the "caret" package (please see code below). Using the same data, without changing any setting, I am just changing the seed value. Sometimes it constructs the model successfully, and sometimes I get an ?Error in indexes[[j]] : subscript out of bounds?. For example when I set seed to 357 following code produced result only for 8

Dear List, I used rlm to calculate two regression models for two data sets (rlm due to two outlying values in one of the data sets). Now I want to compare the two regression slopes. I came across some R-code of Spencer Graves in reply to a similar problem: http://www.mail-archive.com/r-help at stat.math.ethz.ch/msg06666.html The code was: > df1 <- data.frame(x=1:10, y=1:10+rnorm(10))

R folks, As an R novice, I struggle with the mystery of subsetting. Textbook and online examples of this seem quite straightforward yet I cannot get my mind around it. For practice, I'm using the code in MASS Ch. 6, "whiteside data" to analyze a different data set with similar variables and structure. Here is my data frame: ###subset one of three cases for the variable

Hello, Can anyone suggest a simple way to generate a Kaplan-Meier plot with 2 survfit objects, just like this one:? https://drive.google.com/file/d/1fEcpdIdE2xYtA6LBQN9ck3JkL6-goabX/view?usp=sharing Suppose I have 2 survfit objects: fit1 is for the curve on the left (survtime has been truncated to the cutoff line: year 5), fit2 is for the curve on the right (minimum survival time is at the

Hello dear R help members. I am trying to understand the anova.rq, and I am finding something which I can not explain (is it a bug?!): The example is for when we have 3 nested models. I run the anova once on the two models, and again on the three models. I expect that the p.value for the comparison of model 1 and model 2 would remain the same, whether or not I add a third model to be compared

Hello, Is there a function in the survival package that will allow me to test a subset of independent variables for joint significance? I am thinking along the lines of a Wald, likelihood ratio, or F-test. I am using the survreg procedure to estimate my parameters. Thank you. Geoff Geoffrey Smith Visiting Assistant Professor Department of Finance University of Illinois at Urbana-Champaign