| <large>libXpertMassCore and libXpertMassGui Developer Documentation</large>

# Aqueous chemical reactions

These are the classes that are required to model the chemical reactions that occur in the aqueous phase.

MsXpS::libXpertMassCore::CleavageAgent | Model for specifying aqueous cleavage specifications (patterns) of Polymer Sequences
MsXpS::libXpertMassCore::CleavageConfig | Derives from CleavageAgent to provide a model for specifying aqueous cleavage specifications (patterns) of Polymer Sequences along with instructions on the way the cleavage must occur
MsXpS::libXpertMassCore::CleavageMotif | Model for specifying aqueous cleavage motfis of Polymer Sequences
MsXpS::libXpertMassCore::CleavageRule | Model for specifying aqueous cleavage rules for refining cleavage agent specifications (CleavageAgent) of Polymer Sequences
MsXpS::libXpertMassCore::Cleaver | Model for performing aqueous cleavage reactions involving CleavageAgent objects and Polymer Sequences
MsXpS::libXpertMassCore::CrossLink | Abstractions to work with a cross-link entity between Monomer instances
MsXpS::libXpertMassCore::CrossLinkedRegion | Abstractions to work with cross-links and detect the region of oligomers that are linked together
MsXpS::libXpertMassCore::CrossLinker | Abstractions to define the chemical basis of a cross-linking reaction
MsXpS::libXpertMassCore::Fragmenter | Model for performing gas phase fragmentation reactions involving FragmentationPathway objects and Polymer Sequences