calculate_Area          Calculate Area/Intensity for one row of the
                        input sequence dataframe
calculate_PSM           Calculate Spectra Count (PSM) for one row of
                        the input sequence dataframe
calculate_all_Area      Calculate Area/Intensity for the whole input
                        sequence dataframe
calculate_all_PSM       Calculate Spectra Count (PSM) for the whole
                        input sequence dataframe
combine_files_from_folder
                        Combine CSV and TXT Files from a Folder
convert_to_regex_pattern
                        Convert Peptide Sequence to Regex Pattern
create_peptide_plot     Create a peptide Plot
match_and_calculate_positions
                        Match peptide sequence with provided sequence
                        and calculate positions
obtain_mod              Obtain post translational modification(PTM)
                        information from Peptide data based on the
                        specified data type
obtain_mod_Comet        Obtain modification information from Peptide
                        data generated by Comet
obtain_mod_DIANN        Obtain modification information from Peptide
                        data generated by DIA-NN
obtain_mod_MSFragger    Obtain modification information from Peptide
                        data generated by MSFragger
obtain_mod_Maxquant     Obtain modification information from Peptide
                        data generated by Maxquant
obtain_mod_PEAKS        Obtain modification information from Peptide
                        data generated by PEAKS
obtain_mod_Skyline      Obtain modification information from Peptide
                        data generated by Skyline
obtain_mod_Spectronaut
                        Obtain modification information from Peptide
                        data generated by Spectronaut
obtain_mod_mzIdenML     Obtain modification information from Peptide
                        data generated by mzIdenML
obtain_mod_mzTab        Obtain modification information from Peptide
                        data generated by mzTab
peptide_quantification
                        Peptide Quantification
run_pepmap_app          Launch PepMapViz Shiny Application
strip_sequence          Strip peptide sequences based on the specified
                        data type
strip_sequence_Comet    Strip sequence from Comet outputs
strip_sequence_DIANN    Strip sequence from DIANN outputs
strip_sequence_MSFragger
                        Strip sequence from MSFragger outputs
strip_sequence_Maxquant
                        Strip sequence from Maxquant outputs
strip_sequence_PEAKS    Strip sequence from PEAKS outputs
strip_sequence_Skyline
                        Strip sequence from Skyline outputs
strip_sequence_Spectronaut
                        Strip sequence from Spectronaut outputs
