# All Classes and Interfaces

Class
Description
Alignment
Represents an alignment between a Fragment and Reference sub-sequence provides a path to Read and mate Alignment
AlignmentIterator
Iterates across a list of Alignments
ErrorMsg
A generic NGS error class Holds a message describing what happened
Fragment
Represents an NGS biological fragment
FragmentIterator
Iterates across a list of Fragments
LibDependencies
NGS
Package
Represents the NGS software package
Pileup
Represents a slice through a stack of Alignments at a given position on the Reference
PileupEvent
Represents a single cell of a sparse 2D matrix with Reference coordinates on one axis and stacked Alignments on the other axis
PileupEventIterator
Iterates across a list of PileupEvents
PileupIterator
Iterates across a list of Pileups
Read
ReadCollection
Represents an NGS-capable object with a collection of Reads, References and Alignments.
ReadGroup
Represents an NGS-capable object with a group of Reads
ReadGroupIterator
Iterates across a list of ReadGroups
ReadIterator
Reference
Represents a reference sequence
ReferenceIterator
Iterates across a list of References
ReferenceSequence
Represents a reference sequence standalone object
Statistics
Statistical data container