[Bioperl-l] statistics

Sean Davis sdavis2 at mail.nih.gov
Mon Feb 25 21:45:00 EST 2008


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.

Sean


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