[Bioperl-l] Bio::Align::DNAStatistics extension?

[Richard Adams]

Hello,
        I've written a module that is basically a simple implementation
of the Nei-Gojobori method for calculating
        the ratio of synonymous:nonsynonymous mutations in a DNA
alignment of a coding sequence.

        At present it just  calculates the z-score and intermediate
results for pairwise sequence comparisons using the Jukes-Cantor
nucleotide substition model
        or for multiple sequence comparisons by bootstrapping. The idea
is that you can just put in a Bio::SimpleAlign object or
alignment slice and get some idea of the extent of positive/negative
selection easily.

    Just looking at the        the Bio::Align::DNAStatistics module,
would it be of any interest to integrate some of these methods available
in that module, or are they too specific for BioPerl?

Richard

--
Dr Richard Adams
Bioinformatician,
Psychiatric Genetics Group,
Medical Genetics,
Molecular Medicine Centre,
Western General Hospital,
Crewe Rd West,
Edinburgh UK
EH4 2XU

Tel: 44 131 651 1084
richard.adams at ed.ac.uk