[Bioperl-l] statistics

[Sendu Bala]

Sean Davis wrote:
> On Mon, Feb 25, 2008 at 8:04 PM, Lana Schaffer <schaffer at scripps.edu> wrote:
>> Hi,
>>  I want to know if Bioperl does t-tests and how to do it?
>>  Also, I need to get a chi-squared statistic.
> 
> Hi, Lana.  I don't think bioperl offers this functionality.  However,
> a quick search of cpan (http://search.cpan.org) turns up:
> 
> http://search.cpan.org/~yunfang/Statistics-TTest-1.1.0/TTest.pm
> http://search.cpan.org/~dcantrell/Statistics-ChiSquare-0.5/lib/Statistics/ChiSquare.pm
> 
> That said, I know you are an R user.  I generally stick to R for any
> numerics.  If you need both a parsing/data munging language and
> statistics, consider python, where the rpy package allows you access R
> from python and even does data conversion, etc.

There's also an R interface for perl:
http://www.omegahat.org/RSPerl/