AlignStat               AlignStat: A tool for the statistical
                        comparison of alternative multiple sequence
                        alignments
compare_alignments      Compare alternative multiple sequence
                        alignments
comparison_alignment    Comparison Alignment
plot_SP_summary         A line plot summary of sum of pairs score
                        between two multiple sequence alignments
plot_dissimilarity_matrix
                        A heatmap plot of the dissimilarity matrix of
                        two multiple sequence alignments
plot_dissimilarity_summary
                        An area plot summary of the different causes of
                        column dissimilarity between two multiple
                        sequence alignments
plot_similarity_heatmap
                        A heatmap plot of the column identities between
                        two multiple sequence alignments
plot_similarity_summary
                        A line plot summary of column similarity
                        between two multiple sequence alignments
reference_alignment     Reference Alignment
