MI_plot                 Plot Mutual Information Matrix
MI_ranking_couple       Rank Residues Based on Mutual Information
MI_ranking_median       Rank Mutual Information by Median and
                        Collectivity
MImat                   Compute Mutual Information Matrix
SA_encoding             Encode an MD Trajectory Using a Structural
                        Alphabet (C++ backend)
add_active_site         Retrieve and Format Active Site Annotations
                        from UniProt
add_binding_site        Retrieve and Format Ligand Binding Site
                        Annotations from UniProt
add_disulfide_bond      Retrieve and Format Disulfide Bond Annotations
                        from UniProt
add_domain              Retrieve and Format Domain Annotations from
                        UniProt
add_glycosilation       Retrieve and Format Glycosylation Annotations
                        from UniProt
add_lipidation          Retrieve and Format Lipidation Annotations from
                        UniProt
add_location            Retrieve and Format Location Annotations from
                        UniProt
add_modified_residue    Retrieve and Format Modified Residue
                        Annotations from UniProt
add_molecule_processing
                        Retrieve and Format Molecule Processing
                        Annotations from UniProt
add_motive              Retrieve and Format Motif Annotations from
                        UniProt
add_secondary_structure
                        Retrieve and Format Secondary Structure
                        Annotations from UniProt
add_uniprot_annotation
                        Retrieve and Merge UniProt Annotations
add_variants            Retrieve and Format Protein Variants from
                        UniProt
colnames_substring      Extract Substring from Column Names
create_annotation_df    Retrieve UniProt Protein Sequence and Format as
                        Dataframe
do_MI_plot              Generate Mutual Information Matrix Plot and
                        Save to PNG
do_freq_diff_plot       Save frequency-difference plot to PNG
do_freq_plot            Generate Frequency Profile Plot and Save to PNG
do_shannon_entropy_diff_plot
                        Save Shannon Entropy Difference Plot to PNG
do_shannon_entropy_plot
                        Generate Shannon Entropy Plot and Save to PNG
entropy_visualization   Visualize Shannon Entropy on a Protein
                        Structure
freq_diff_plot          Plot Structural Frequency Differences
freq_plot               Plot Frequency Profile
get_res_numbering       Retrieve Residue Numbering from Encoded
                        Trajectory
import_SA               Import Structural Alphabet from PDB Files
nMImat                  Compute Normalized Mutual Information Matrix
shannon_entropy         Compute Shannon Entropy and Frequency
                        Distribution
shannon_entropy_diff_plot
                        Plot Shannon Entropy Difference
shannon_entropy_plot    Plot Shannon Entropy
shannon_ranking         Rank Fragments by Shannon Entropy
total_ranking           Merge Shannon Entropy and MI Rankings
