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

Frank E Harrell Jr f.harrell at vanderbilt.edu
Wed Apr 19 20:48:03 CEST 2006

Kim Milferstedt wrote:
> Hi,
> I'm working on a data set that contains a couple of factors and a 
> number of dependent variables. From all of these dependent variables 
> I would like to calculate mean, standard deviation and quantiles. 
> With the function FUN I get all the means and stdev that I want but 
> quantiles are only calculated for the first of the dependent 
> variables (column 8 in the summarize command). What do I have to do 
> differently in order to get all the quantiles that I want?
> Thanks,
> Kim
> sgldm2    <-  read.table("E:/analysistemp/060412_test_data2.txt", header=T)
> attach(sgldm2)
> names(sgldm2)
> FUN         <-  function(x)c(Mean=mean(x,na.rm=TRUE), 
> STDEV=sd(x,na.rm=TRUE), Quantile=quantile(x, probs= 
> c(0.25,0.50,0.75),na.rm=TRUE))
> ordering    <-  llist(time_h_f, Distance_f)
> resALL      <-  summarize(sgldm2[,8:10], ordering, FUN)

Please read the documentation and see 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.


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Frank E Harrell Jr   Professor and Chair           School of Medicine
                      Department of Biostatistics   Vanderbilt University

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