[R] reference on fisher.test()

[Kjetil Halvorsen]

For some alternative views (and references) for FET see:
http://www.stat.columbia.edu/~cook/movabletype/archives/2009/10/what_is_the_bay.html#comments

kjetil

On Fri, Oct 16, 2009 at 8:38 AM, Prof Brian Ripley
<ripley at stats.ox.ac.uk> wrote:
> On Fri, 16 Oct 2009, Robin Hankin wrote:
>
>> Hi
>>
>> fexact.c points you to the original ACM paper:
>
> Well, you'll get a better idea from the help page as to the real 'original'
> source reference: the reference below is to a revised version in a remark.
>
> And indeed Agresti's book (first edition on the help page, also has a 2002
> second edition) is a good source for the 'minutiae'.
>
>
>
>>
>> /*
>> ALGORITHM 643, COLLECTED ALGORITHMS FROM ACM.
>> THIS WORK PUBLISHED IN TRANSACTIONS ON MATHEMATICAL SOFTWARE,
>> VOL. 19, NO. 4, DECEMBER, 1993, PP. 484-488.
>> ---------------------------------------------------------
>>
>> You may find the discussion in the vignette("fishervig")
>> in the aylmer package helpful.
>>
>>
>>
>> HTH
>>
>>
>> Robin
>>
>>
>>
>>
>>
>> Peter Dalgaard wrote:
>>>
>>> Peng Yu wrote:
>>>>
>>>> On Thu, Oct 15, 2009 at 4:19 PM, RICHARD M. HEIBERGER <rmh at temple.edu>
>>>> wrote:
>>>>>
>>>>> On Thu, Oct 15, 2009 at 4:56 PM, Peng Yu <pengyu.ut at gmail.com> wrote:
>>>>>>
>>>>>> Can somebody point me a book on Fisher's exact test? I looked a few
>>>>>> webpages. But the descriptions on the webpages are not very complete.
>>>>>> Is there a book on that covers all the aspect of Fisher's exact test
>>>>>> that is implemented in R?
>>>>>
>>>>> Section 15.2 of my book (Statistical Analysis and Data Display, with
>>>>> Burt Holland and published by Springer)
>>>>>  shows a detailed example.
>>>>
>>>> It doesn't mention odd ratio.
>>>
>>> The general idea of basing the inference on the noncentral hypergeometric
>>> distribution is something I have first seen in Breslow&Day's famous 1980
>>> book on case-control studies, including the fact that the conditional MLE
>>> differs from the ordinary OR. (I'm sure there's an earlier reference, but I
>>> happened to be a grad student when that book came out...)
>>>
>>> The rest of what R does is "carbon copied" from similar procedures for
>>> the binomial distribution. I wouldn't know what kind of book to look for for
>>> that sort of minutiae. Alan Agresti is a possible source.
>>>
>>
>>
>> --
>> Robin K. S. Hankin
>> Uncertainty Analyst
>> University of Cambridge
>> 19 Silver Street
>> Cambridge CB3 9EP
>> 01223-764877
>>
>> ______________________________________________
>> R-help at r-project.org 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.
>>
>
> --
> Brian D. Ripley,                  ripley at stats.ox.ac.uk
> Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
> University of Oxford,             Tel:  +44 1865 272861 (self)
> 1 South Parks Road,                     +44 1865 272866 (PA)
> Oxford OX1 3TG, UK                Fax:  +44 1865 272595
>
> ______________________________________________
> R-help at r-project.org 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.
>