calculate_entropy       Calculate Shannon Entropy
calculate_hellinger_matrix
                        Calculate Hellinger Distance Matrix
cluster_sites_by_entropy
                        Cluster a Univariate Numeric Vector by Gaussian
                        Mixture Model
decode_aa_sequence      Decode Amino Acid Sequences
detect_changepoints_ecp
                        Detect Temporal Change Points (ECP)
detect_changepoints_hdcp
                        Detect Temporal Change Points (HDcpDetect)
encode_aa_sequence      Encode Amino Acid Sequences
extract_fasta_countries
                        Extract Countries from FASTA Sequence Names
extract_fasta_dates     Extract Dates from FASTA Sequence Names
fasta_to_char_matrix    Convert FASTA Object to Character Matrix
filter_ambiguous_sequences
                        Remove Sequences Containing Ambiguous Residues
partition_time_windows
                        Partition Data into Time Windows
plot_entropy_trajectories
                        Plot Shannon Entropy Trajectories
plot_site_class_trajectory
                        Plot GMM Entropy Class Trajectory for a Single
                        Site
relabel_entropy_classes
                        Relabel Entropy Classes
sarscov2_sample         SARS-CoV-2 Surface Glycoprotein Sequences -
                        NCBI Demo Sample
sarscov2_variants       SARS-CoV-2 VOC/VOI Curated Variant Metadata
simulate_variant_evolution
                        Simulate Viral Variant Evolution
tabulate_site_evolution
                        Tabulate Site Frequency Evolution
