Re: [boost] Fisher Exact test in boost ?

Subject: Re: [boost] Fisher Exact test in boost ?
From: Jean-Baptiste Cazier (jean-baptiste.cazier_at_[hidden])
Date: 2010-07-23 07:48:24

Thanks John,

I will try to perform the implementation myself using the updated  
hypergeometric.

Has anyone pointers to efficient algorithm for two-sided 2x2 Fisher  
exact (or Barnard) test, able to deal with mix of small  and large  
cell counts (  0 and ~ 10,000) ?
Large cell counts are typically a problem for the classical factorial  
version.

Thanks

Cheers !
Jean-Baptiste

On Jul 22, 2010, at 11:03 AM, John Maddock wrote:

>> I am brand new to this mailing list so I apologize in advance for  
>> the naivety of my request.
>>
>> I am looking for an implementation of the Fisher exact test in C/C+ 
>> +,  and was somehow hoping to find one in boost.
>>
>> I have looked at the documentation of boost and and found many  
>> statistical tools, but not the one I am looking for.
>> The closest I got was a discussion in the mailing archive in 2008  
>> on  the use of the hypergeometric distribution to perform such   
>> implementation
>> Was any progress made since then ? Could I now get the cdf, pmf and  
>> sf from an hypergeometric distribution ? or even better a Fisher  
>> exact  test directly ?
>
> There's no direct test (but if you'd like to submit one as an  
> example that would be great!), the hypergeometric is in Boost.Math  
> now: http://www.boost.org/doc/libs/1_43_0/libs/math/doc/sf_and_dist/html/math_toolkit/dist/dist_ref/dists/hypergeometric_dist.html 
>  and I believe supports all the operations you need to conduct the  
> test.
>
> HTH, John.
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