Re: [R] epitools and R 2.5
--- Prof Brian Ripley [EMAIL PROTECTED] wrote:
On Mon, 11 Jun 2007, Pietro Bulian wrote:
At work after updating to R 2.5 I get an error using epitab from
package
epitools, when at home (R 2.4) I get no error. Could someone help
me?
The maintainer: this is a long-standing bug in the package.
But you have enough information from the error message to correct the
bug
and rebuild the package yourself.
There are no such versions of R as '2.5' and '2.4' (see the posting
guide), but R 2.4.0 did give a warning on your example.
Note that you are using different versions of epitools in your two
locations, a difference you failed to mention and which may be
important.
Thanks Pietro! I am the maintainer and found the bug.
In the 'epitab' function:
if (method == oddsratio) {
...
else {
fin - list(tab = tab, measure = oddsratio,
conf.level = conf.level, pvalue = pvalue, )
}
The comma should not be after the second pvalue. You can correct this
in your local workspace. I will correct and upload new package.
Tomas
===
Tomas Aragon, MD, DrPH
Tel: 510-847-9139 (mobile)
Web: http://www.medepi.net/aragon
__
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
and provide commented, minimal, self-contained, reproducible code.
[R] Assessing fit for non-nested models using clogit in survival package
I am analyzing a 1-to-2 matched case-control study using clogit in the survival package. I am interested in comparing and assessing fit of non-nested models. I don't want to program all the diagnostics described in Hosmer/Lemeshow (2000). Can someone proficient with clogit and assessing fit for non-nested models point me in the right direction. Many thanks! Tomas Tomas Aragon, MD, DrPH Tel: 510-847-9139 (mobile) URL: http://www.idready.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
Re: [R] Population Projections
--- Rodriguez, Orlando [EMAIL PROTECTED] wrote: Is there an R Package for Population Projections? Orlando J. Rodriguez The Center for Population Research University of Connecticut Unit 2068 344 Mansfield Road Storrs, CT 06269-2068 (860)486-9269 (860)486-6356 (f) http://popcenter.uconn.edu Visit Dept of Demography at UC Berkeley courses page: http://www.demog.berkeley.edu/courses/ They use R and provide some code. Tomas Tomas Aragon, MD, DrPH Tel: 510-847-9139 (mobile) URL: http://www.idready.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
Re: [R] Relative Risk and Confidence Intervals
--- MJ Price, Social Medicine [EMAIL PROTECTED] wrote: Dear all, Despite searching the fullrefman file I have been unable to locate a function to calculate the relative risk and confidence intervals from a simple 2 by 2 contingency table. Can anyone tell me how this is done. Thanks in advance Malcolm -- MJ Price, Social Medicine [EMAIL PROTECTED] Malcolm, Install the 'epitools' package and use the 'epitab' function, and use method=riskratio Tomas http://www.epitools.net http://www.medepi.net/aragon/ __ 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
Re: [R] R code for testing the equality of two independent Binomial Populations
--- jiaotuo niu [EMAIL PROTECTED] wrote: Hey guys, I have problem in dealing with R code for testing the equality of two independent Binomial Populations. The null hypo. is p1=p2=p (Notice: not only p1=p2 !). I don't know how to write the test code which includes the value of 'p'. Your help is appreciated! Shuang Try 'prop.test' function. Tomas Tomas Aragon, MD, DrPH Work: http://www.idready.org EpiTools: http://www.epitools.net HomePage: http://www.medepi.net/aragon __ 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
Re: [R] Output a dataframe from R to excel
--- Faith G [EMAIL PROTECTED] wrote: Hi, I am trying to output an dataframe from R to Excel file. Can anyone tell me how to do it? Thanks a lot. Eg. R dataframe: ABC 121 342 ... Try: write.table(mydf, c:/mydf.csv, sep=,, row.names=FALSE) Then open 'mydf.csv' in Excel. Tomas http://www.epitools.net __ 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
[R] Building MacOSX binary in Windows XP
Under Windows XP, I am able to build R package archived as source (.tar.gz) and Windows binary (.zip). Can I create MaxOSX archive file (.tgz) in Windows XP? Thanks, Tomas Tomas Aragon http://www.epitools.net __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] small world models?
--- mattf [EMAIL PROTECTED] wrote: Hi, I've searched the archives for a discussion on the use of R for developing small world or scale-free network models but have been unable to dig anything up. Is anyone working on these types of models using R, and if so, have you found this language amenable to their development? thanks, matt farnsworth Contact Dr. Travis Porco at [EMAIL PROTECTED] . He uses R for stochastic modeling of infectious diseases, including network models. He maintains a website at http://www.mathepi.com Tomas __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] help for stata user
--- iip [EMAIL PROTECTED] wrote: Hi, I'm new to R, and I'm STATA user before, could you help me where I can get document about comparison command between STATA and R. Thank you very much, Best regards, -iip- I am a former Stata user. Although I have no direct comparison between R and Stata, you might get an idea from some of our links: I post my draft R manual on at http://www.medepi.net/aragon Look at our R course syllabus at http://www.idready.org/courses/2004/fall/2004FallEpiUsingR.html (There is link to great tutorial by Mark Myatt) I have some computer-based labs based on CDC outbreak modules at http://www.idready.org/epi/lab/index.html I am very slowly building epitools R package, available at http://www.epitools.net Eventually, www.epitools.net will become the portal for all these documents. Tomas = Tomas Aragon, MD, DrPH, Director Center for Infectious Disease Preparedness UC Berkeley School of Public Health 1918 University Ave., 4th Fl., MC-7350 Berkeley, CA 94720-7350 http://www.idready.org __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Is R good for not-professional-statistician, un-mathematical clinical researchers?
--- Patrick Burns [EMAIL PROTECTED] wrote: I definitely agree that focussing on what R does better than other options is the right approach. One thing that Tomas does not mention is graphics. Two possible selling points along this line are: *) R is good for understanding your data with graphics. *) R is good for producing graphics for publication. This discussion reminds me of something my wife says: classes are for learning what people don't want to do -- if someone is happy to do something, they don't need a class to force them to do it. Patrick Burns Burns Statistics [EMAIL PROTECTED] +44 (0)20 8525 0696 http://www.burns-stat.com (home of S Poetry and A Guide for the Unwilling S User) Thanks! I agree. I have a web page demonstrating plotting West Nile virus infections in California at http://www.medepi.net/data/wnv/index.html Tomas = Tomas Aragon, MD, DrPH, Director Center for Infectious Disease Preparedness UC Berkeley School of Public Health 1918 University Ave., 4th Fl., MC-7350 Berkeley, CA 94720-7350 http://www.idready.org __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Is R good for not-professional-statistician, un-mathematical clinical researchers?
I am a clinician turned epidemiologist. I just taught R in an intro epi course. Here are some tips: - encourage them to use R as their calculator - encourage them to use R as their spreadsheet - provide them with exercises to work this functionality - we started a Yahoo help group for beginner questions (see http://www.ucbcidp.org/epitools.html) I have some exercises at http://www.medepi.net/epitools/lab/ If you only show how to do things that can be done is any statistical package, then they'll choose the user-friendly statistical package (e.g., stata). For any additional question, please contact me. Good luck! Tomas Aragon http://www.idready.org --- Jacob Wegelin [EMAIL PROTECTED] wrote: Alternate title: How can I persuade my students that R is for them? Alternate title: Can R replace SAS, SPSS or Stata for clinicians? I am teaching introductory statistics to twelve physicians and two veterinarians who have enrolled in a Mentored Clinical Research Training Program. My course is the first in a sequence of three. We (the instructors of this sequence) chose to teach R rather than some other computing environment. My (highly motivated) students have never encountered anything like R. One frankly asked: Do you feel (honestly) that a group of physicians (with two vets) clinicians will be able to effectively use and actually understand R? If so, I will happily call this bookstore and order this book [Venables and Ripley] tomorrow. I am heavily biased toward R/S because I have used it since the first applied statistics course I took. But I would love to give these students some kind of objective information about the usability of R by non-statisticians--not just my own bias. Could anyone suggest any such information? Or does anyone on this list use R who is a clinician and not really mathematically savvy? For instance, someone who doesn't remember any math beyond algebra and doesn't think in terms of P(A|B)? Or have we done a disservice to our students by choosing to make them learn R, rather than making ourselves learn SAS, Stata or SPSS? Thank you for any ideas Jake Wegelin __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html = Tomas Aragon, MD, DrPH, Director Center for Infectious Disease Preparedness UC Berkeley School of Public Health 1918 University Ave., 4th Fl., MC-7350 Berkeley, CA 94720-7350 http://www.idready.org __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] creating a plot
--- Konrad Banachewicz [EMAIL PROTECTED] wrote: Hi, I have a time series plot to produce, yet I want the x-axis to be labelled with dates (stored on another array) and not with observation numbers. Can anyone suggest me how? Thanks. Konrad Try checking out http://www.medepi.net/data/wnv/index.html at bottom of page. Tomas = Tomas Aragon, MD, DrPH, Director Center for Infectious Disease Preparedness UC Berkeley School of Public Health 1918 University Ave., 4th Fl., MC-7350 Berkeley, CA 94720-7350 http://www.idready.org __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to learn R quickly?
--- vinkwai wong [EMAIL PROTECTED] wrote: i am new to R,so i post here to ask you how to learn R quickly? is there some usefull materials about using R. ps:though the manual is a good materials,but it is not the best for a newbie,i think. thank you ! Try http://www.ucbcidp.org/courses/epiwithr.pdf Early draft of tutorial written for public health epidemiologists. Tomas = __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
