Re: [R] R Reporting - PDF/HTML mature presentation quality package?

on a easy to use R package one can use for generating publication quality reports? Outputting HTML or PDF. Doing this without LaTeX is like doing statistical analysis without linear models and the Wilcoxon test. -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] As.Factor with Logistic Regression

) plot(f, fun=plogis) # plot partial effects of all predictors, probability scale -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help

Re: [R] latex function with lm

/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] effect size

Matthew Bridgman wrote: Does anyone know a simple way of calculating effect sizes? Thanks MB Yes - the following formula is simple and fairly universal: 2 :-) -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics

[R] useR! Thanks

! is one of the most fun conferences I've attended. Thanks again! -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list

Re: [R] modeling logit(y/n) using lrm

/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] SPSS variable lables import

https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] position of number at risk in survplot() graphs

object and using text( ). Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman

Re: [R] Ordinal Independent Variables

Prof Brian Ripley wrote: On Mon, 22 May 2006, Frank E Harrell Jr wrote: Rick Bilonick wrote: When I run lrm from the Design package, I get a warning about contrasts when I include an ordinal variable: Warning message: Variable ordfac is an ordered factor. You should set options

Re: [R] odd feature

-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] Ordinal Independent Variables

( ) variable to hand to Design. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] odd feature

a recycle of a smaller vector. (I do often use a recycle of a scalar.) regards, /iaw The current behavior is logical to me. Are you looking for if(test) a else b? Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics

Re: [R] Can lmer() fit a multilevel model embedded in a regression?

), Room 731 212-854-7075 Mailing address: 1255 Amsterdam Ave, Room 1016 Columbia University New York, NY 10027-5904 212-851-2142 (fax) 212-851-2164 -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics

Re: [R] Can lmer() fit a multilevel model embedded in a regression?

Andrew Gelman wrote: Frank, Just to check: are you saying that this model can be fit in lmer()? Thanks. Andrew Not sure about that. Greenland probably used BUGS but doesn't mean you can't do it with lmer. Frank Frank E Harrell Jr wrote: A great reference for that kind of model

Re: [R] lmer, p-values and all that

-values is not straightforward even in that far simpler situation. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing

Re: [R] devide data into decile

to devide it? For example, the result of cut() as a new variable to the data.frame and afterwards split() the data.frame by the resulting factor. Or library(Hmisc) xg - cut2(x, g=10)# labels deciles nicely Frank Uwe Ligges -- Frank E Harrell Jr Professor and Chair School

Re: [R] data manipulation docs

at biostat.mc.vanderbilt.edu -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r

Re: [R] New-user support package - suggestions?

__ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department

Re: [R] stepwise regression

, Jinsong Zhao -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] function for linear regression with White std. errors

of Washington, Seattle __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School

Re: [R] regression modeling

, of finite dimension, and the complexity of our models should not grow very fast as N increases. I find the AIC approach gives me more accurate predictions. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt

Re: [R] rcorrp.cens

. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read

Re: [R] Hmisc + summarize + quantile: Why only quantiles for first variable in data frame?

the examples. The first argument to summarize is a matrix or vector and if a matrix, FUN must use matrix operations if you want column-by-column results. FH -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt

Re: [R] Creat new column based on condition

== 10, 4, ifelse( V1 == 20, 6, 10 )) Duncan Murdoch So the O/P looks like this V1 V2 10 4 20 6 30 10 10 4 10 4 20 6 Thanks in advance. Sachin -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] smooth the ecdf plots

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Hmisc + summarize + quantile: Why only quantiles for first variable in data frame?

/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help

Re: [R] 3D pie

can actually hurt others in the long run. 2-D pie charts are terrible. That makes 3-D pie charts terrible to the 3/2 power. Excel has serious errors and is not a good model for reproducible research. -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] lambda, uncertainty coefficient ( Somers D)

E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting

Re: [R] dcolumn

Brian Quinif wrote: Does anyone out there use dcolumn=TRUE in the latex() function in the Hmisc library? I would like to line up the data in a latex table I'm making using latex(), but I'm having some issues with this feature. Since there is no description of it in the help, I thought that

Re: [R] logistic regression model with non-integer weights

probabilities and letting the utility possessor make the final decision. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list

Re: [R] logistic regression model with non-integer weights

Ramón Casero Cañas wrote: Frank E Harrell Jr wrote: This makes me think you are trying to go against maximum likelihood to optimize an improper criterion. Forcing a single cutpoint to be chosen seems to be at the heart of your problem. There's nothing wrong with using probabilities

Re: [R] long caption titles for tables

-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman

Re: [R] variable selection when categorical variables are available

function in the Design package). -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman

Re: [R] using latex() in R for Unix

. It's the print method that does that, so just don't print. E.g. invisible(latex()) Or do w - latex(.., file='...') Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] F test for clustered data regression ?

using robcov or bootcov, only Wald chi-square tests are available. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch

Re: [R] Boxplot

? jean-pierre gerbal http://mathazay.free.fr/spip/ library(Hmisc) ?panel.bpplot With library(lattice), bwplot, and panel.bpplot you can show all deciles or any vector of quantiles. -- Frank E Harrell Jr Professor and Chair School of Medicine Department

[R] (no answer)

I have never taken a statistics class nor read a statistics text, but I am in dire need of help with a trivial data analysis problem for which I need to write a report in two hours. I have spent 10,000 hours of study in my field of expertise (high frequency noise-making plant biology) but I've

Re: [R] ROC optimal threshold

was so large as could be considered infinite. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch

Re: [R] ROC optimal threshold

cutpoints from the data, there is uncertainty from the cutpoint that may have to be taken into account. See for example http://biostat.mc.vanderbilt.edu/twiki/pub/Main/RmS/fehbib.html#roy06dic Frank Frank E Harrell Jr [EMAIL PROTECTED] 03/31/06 11:20 AM Choosing cutoffs is frought

Re: [R] How to compare areas under ROC curves calculated with ROC R package

the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr

Re: [R] Simulating survival data

randomization. Thanks for the help. Peter library(Hmisc) ?spower -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list

Re: [R] legend in bubble plots made with symbols()

__ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] errorbars with xyplot

-- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read

Re: [R] Ordered logistic regression in R vs in SAS

]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department

Re: [R] how to calculate the quantile of the weighted data

Jing Yang wrote: Dear R-users, Does anyone have an idea of how to calculate the quantile of the weighted data? Any suggestion will be appreciated! Best,Jing library(Hmisc) ?wtd.quantile -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] Multiple logistic regression

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Compute quantiles with values and correspondent frequencies

package. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do

Re: [R] proc summary in R?: follow up

need to specify FUN. FH - Original Message - From: Frank E Harrell Jr [EMAIL PROTECTED] To: Emilie Berthiaume [EMAIL PROTECTED] Cc: R-help@stat.math.ethz.ch Sent: Wednesday, March 01, 2006 12:16 PM Subject: Re: [R] How to do a proc summary in R? Emilie Berthiaume wrote: Hi

Re: [R] How to do a proc summary in R?

list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] segmentation fault with Hmisc areg.boot()

Martin Henry H. Stevens wrote: Hi Folks, Mac OS 10.4.4 R 2.2.1(2005-12-20 r36812) Hmisc 3.0-10 acepack 1.3-2.2 I keep getting a segmentation fault when trying to run areg.boot in the Hmisc package. I include below output from two different attempts. Thank you in advance for any help.

Re: [R] Mathematical typesetting of column heads using the latex (Hmisc) function

list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Tranferring R results to word prosessors

mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Transferring R results to word prosessors

. That might be a good selling argument for R as well. Tom -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https

Re: [R] Logistic regression - confidence intervals

simulated example it's best to do set.seed(something) so everyone will get the same data. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help

Re: [R] Prediction method for lowess,loess,lokerns,lpepa,ksmooth

-project.org/posting-guide.html This is somewhat related to what you want. In the Hmisc package look at the areg.boot function. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] statistical modelling SAS vs R

in the model, type III tests have been criticized. If there are no interactions, type Type III = Type II. Frank Harrell -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] error message in cox regression cph()

deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School

Re: [R] Help with ldBands(Hmisc)

/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help

Re: [R] Logistic regression model selection with overdispersed/autocorrelated data

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Sweave: trouble controlling Design package startup output

the Design library start up without any fanfare: echo=F,quiet=T,print=F= library(Design, verbose=F) @ But in the output there is still one page of banner information, which starts like this: Loading required package: Hmisc Hmisc library by Frank E Harrell Jr Type library(help= Hmisc

[R] Importing QIF files

Has anyone written R code for importing financial QIF files? I know there is an OpenOffice plugin for importing these into a spreadsheet but I found that it omits some records. Thanks, Frank -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] Cumulative Density Plots (Hmisc/lattice)

of ECDF. I've never had a client complain about it before. FH -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list

Re: [R] tapply and weighted means

__ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics

Re: [R] Binary logistic modelling: setting conditions (defining thresholds) in the fitted model (lrm)

more errors when X2 50. lrm.1- lrm(X8~rcs(X1,5)+ rcs(X2,5),x=T,y=T) Thanks a lot for feedback discussion, Jan -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Odds Ratios in Logistic Regression with Effect Modifiers

Brasília, Brazil Install the Hmisc and Design packages then type ?summary.Design after library(Design) -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] wicked wikis for R

Jean-Christophe BOUETTE wrote: From: Arin Basu [EMAIL PROTECTED] To: r-help@stat.math.ethz.ch Date: 8 Jan 2006 19:18:17 - Subject: [R] wicked wikis for R Message: 41 Date: Sun, 08 Jan 2006 13:52:33 +1100 From: paul sorenson [EMAIL PROTECTED] Subject: Re: [R] Wikis etc. To: Frank E Harrell Jr

Re: [R] Wikis for R

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] A comment about R:

__ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department

[R] Wikis etc.

a compendium of examples. Just my .02 Euros Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https

Re: [R] A comment about R:

Yield Engineer Reflectivity [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr

Re: [R] A comment about R:

Yield Engineer Reflectivity [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr

Re: [R] Which cluster function can be used to cluster a correlaiton matrix?

Vincent Deng wrote: Hi, I'd got a matrix of correaltion values. Which cluster method can I use to cluster it? library(Hmisc) ?varclus __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting

Re: [R] Logistic regression to select genes and estimate cutoff point?

, nonparametric vs. parametric statistics, stability of selected genes, discovery validation, ... -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help

Re: [R] diagnostic functions to assess fitted ols() model: Confidence is too narrow?!

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Looking for a sort of tapply() to data frames

the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https

Re: [R] Design library

@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt

Re: [R] SPSS and R ? do they like each other?

/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Closed form for regression splines

do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch

Re: [R] Impaired boxplot functionality - mean instead of median

Evgeniy Kachalin wrote: Frank E Harrell Jr пишет: Evgeniy Kachalin wrote: Marc Schwartz (via MN) пишет: Marc Schwartz (via MN) пишет: library(Hmisc) library(lattice) ?panel.bpplot bwplot(, panel=panel.bpplot) By default, panel.bpplot shows the mean (dot) and median (line

Re: [R] Impaired boxplot functionality - mean instead of median

. I have gained a lot from seeing outer quantiles on the plot, and I don't like to show outer points for fear of someone labeling them outliers. For describing raw data distributions, I never find standard deviations useful, however. -- Frank E Harrell Jr Professor and Chair School

Re: [R] using minor tickmarks with xYplot

in advance for your help. vn __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair

Re: [R] obtaining a ROC curve

are useful statistics though. In the Hmisc package see somers2 and rcorr.cens for getting the ROC area nonparametrically. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Fitting model with varying number of predictors

= +) for the third and then fit a single model lm(y~xxx) It did not work. Please suggest how to do it. Thanks. Jun -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Spearman's Rho Help!

__ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html In the Hmisc package see rcorr -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] A two-part question about box-percentile plots, bpplot(): (1) yaxt=n doesn't seem to work (2) how to display mean values

https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] aggregate slow with many rows - alternative?

Gabor Grothendieck wrote: Convert dat to a matrix and see if working with the matrix instead of a data frame speeds things up enough. In the Hmisc package the asNumericMatrix and matrix2dataFrame functions facilite this. Also look at the summarize and mApply functions in Hmisc, which can be

Re: [R] keeping interaction terms

between main effects and interactions are not to be tolerated. Again this is not the case. It is a fact of life that we must accomodate. [Some people like to center main effects to reduce this correlation but that is an artificial and not helpful approach.] Frank -- Frank E Harrell Jr

Re: [R] error bars on xy plots and barplots and histograms

WWW.DARWINFOUNDATION.ORG __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair

Re: [R] R and Data Storage

), load()'ing it back will provide an annotated data frame, quickly. The contents( ) function can show the attributes, and we use html(contents( )) to put up a web page with hyperlinks for value labels (factor variable levels attribute). -- Frank E Harrell Jr Professor and Chair School

Re: [R] Strange Result using weightedMedian

which does not show this inconsistency? All the best, Oliver By the way: library(Hmisc) wtd.quantile(x,w) 0% 25% 50% 75% 100% 0.200 0.275 0.400 0.500 0.500 Also see the type argument to wtd.quantile -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] multiple binary log regression with R?

! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch

Re: [R] Graphical presentation of logistic regression

Jari Oksanen wrote: On Wed, 2005-09-14 at 06:29 -0500, Frank E Harrell Jr wrote: Beale, Colin wrote: Hi, I wonder if anyone has written any code to implement the suggestions of Smart et al (2004) in the Bulletin of the Ecological Society of America for a new way of graphically presenting

Re: [R] Graphical presentation of logistic regression

for details. -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE

Re: [R] [S] Any S-plus/R doc or manual for SAS user out there?

paul king wrote: Dear list, I am looking for an Splus or R doc / manual for SAS user. Thank you in advance. PK Somewhat helpful in that regard: http://biostat.mc.vanderbilt.edu/twiki/pub/Main/RS/sintro.pdf -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] Fisher's exact test vs Chi-square

then? Tim [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr

Re: [R] Prediction with multiple zeros in the dependent variable

. If the PO assumption happens to hold (look at partial residual plots) you have a simple solution. Frank -- Frank E Harrell Jr Professor and Chair School of Medicine Department of Biostatistics Vanderbilt University

Re: [R] Predicting responses using ace

]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] Predicting responses using ace

get this formula thing yet and maybe I'm passing a totally unrelated formula to the function. z ~ x + y tells areg.boot to fit a model f(z) = g(x) + h(y) which is quite general, if x and y are additive. Frank On 9/7/05, Frank E Harrell Jr [EMAIL PROTECTED] wrote: Luis Pineda wrote: Well, I

Re: [R] Predicting responses using ace

https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Look at the areg.boot function in the Hmisc package, and its associated predict method. -- Frank E Harrell Jr Professor and Chair School of Medicine

Re: [R] C-index : typical values

the relationship between C-index and Dxy in validate.cph or elsewhere if this is not a widely known issue. Will do -Frank Thank you again. Regards, Adai On Fri, 2005-09-02 at 19:55 -0400, Frank E Harrell Jr wrote: Adaikalavan Ramasamy wrote: I am doing some coxPH model fitting

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