# Package ngs

package ngs

- 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
  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