NAME

Bio::Align::StatisticsI - Calculate some statistics for an alignment

SYNOPSIS

Give standard usage here

DESCRIPTION

Describe the interface here

FEEDBACK

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AUTHOR - Jason Stajich

Email jason@bioperl.org

Describe contact details here

CONTRIBUTORS

Additional contributors names and emails here

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

distance

 Title   : distance
 Usage   : my $distance_mat = $stats->distance(-align  => $aln, 
		 			       -method => $method);
 Function: Calculates a distance matrix for all pairwise distances of
           sequences in an alignment.
 Returns : Array ref
 Args    : -align  => Bio::Align::AlignI object
           -method => String specifying specific distance method 
                      (implementing class may assume a default)

available_distance_methods

Title   : available_distance_methods
Usage   : my @methods = $stats->available_distance_methods();
Function: Enumerates the possible distance methods
Returns : Array of strings
Args    : none