Uses of Class
pal.alignment.SitePattern

Packages that use SitePattern
Package
Description
Classes dealing with sequence alignments, including methods for reading and printing in several possible formats, as well as rearranging and concatenating.
Classes for reading and generating distance matrices, including computation of pairwise distances for sequence data (maximum-likelihood and observed distances).
Classes for evaluating evolutionary hypothesis (chi-square and likelihood criteria) and estimating model parameters.