Package: aaMI
Version: 1.0-1
Date: 2005-07-08
Title: Mutual information for protein sequence alignments
Author: Kurt Wollenberg <kurt.wollenberg@gmail.com>
Maintainer: Kurt Wollenberg <kurt.wollenberg@gmail.com>
Depends: R (>= 2.0.0)
Description: This package contains five functions. read.FASTA reads in
        a FASTA-format alignment file and parses it into a data frame.
        read.CX reads in a ClustalX .aln-format file and parses it into
        a data frame. read.Gdoc reads in a GeneDoc .msf-format file and
        parses it into a data frame. The alignment data frame returned
        by each of these functions has the sequence IDs as the row
        names and each site in the alignment is a column in the data
        frame. The program aaMI calculates the mutual information
        between each pair of sites (columns) in the protein sequence
        alignment data frame. The program aaMIn calculates the
        normalized mutual information between pairs of sites in the
        protein sequence alignment data frame. The normalized mutual
        information of sites i and j is the mutual information of these
        sites divided by their joint entropy.
License: GPL version 2 or newer
Packaged: Mon Oct 17 11:06:36 2005; kwollenberg
Built: R 2.12.0; ; 2010-12-08 23:17:42 UTC; unix
