| clusterdata | Cluster Dataset Based on Inconsistency Values | 
| createPepObj | Create a Pep Object for PQPQ | 
| findAllNodesBeneath | Find All Nodes Beneath A Given Hclust Node | 
| findInconsistency | Find Inconsistency Values Of Cluster Nodes | 
| findSigPeptides | Find Peptides With Significant Correlation to Model Peptide | 
| peptideWithHighestAbundance | Find Peptide with the Highest Abundance | 
| pqpq | PQPQ With Missing Values | 
| pqpq_orig | Matlab's PQPQ function | 
| proteoform_ID_Four_Plus | Identify Proteoforms from Peptides | 
| readProteinPilot | Read a Protein Pilot Excel File | 
| removeCols_nNAs | Remove Columns with More than N NAs | 
| removeLowConf | Remove Low Confidence Peptides | 
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