ContactMatrix-access    ContactMatrix accessors
ContactMatrix-class     ContactMatrix class and constructors
ContactMatrix-dist      Compute linear distances from ContactMatrix
                        objects
ContactMatrix-sort      ContactMatrix sorting and ordering
ContactMatrix-subset    ContactMatrix subsetting and combining
GInteractions-class     GInteractions class and constructors
Interaction-overlaps    Find overlaps between interactions in one or
                        two dimensions
InteractionSet-class    InteractionSet class and constructors
boundingBox             Get the bounding box
inflate                 Convert between classes
interaction-access      Interaction accessors
interaction-compare     Interaction comparisons
interaction-subset      Interaction subsetting and combining
linearize               Linearize 2D interactions into 1D ranges
linkOverlaps            Link overlapping regions
overlapsAny,ContactMatrix,GRanges-method
                        Find overlaps between GRanges and a
                        ContactMatrix
pairdist                Get the linear distance for each interaction
pairs                   Extract paired ranges
trim,GInteractions-method
                        Equivalents of GRanges methods
