All Classes and Interfaces
Class
Description
Represents an alignment between a Fragment and Reference sub-sequence
provides a path to Read and mate Alignment
Iterates across a list of Alignments
A generic NGS error class
Holds a message describing what happened
Represents an NGS biological fragment
Iterates across a list of Fragments
Represents the NGS software package
Represents a slice through a stack of Alignments at a given position on the Reference
Represents a single cell of a sparse 2D matrix with Reference coordinates on one axis
and stacked Alignments on the other axis
Iterates across a list of PileupEvents
Iterates across a list of Pileups
Represents an NGS-capable object with a collection of
Reads, References
and Alignments.
Represents an NGS-capable object with a group of Reads
Iterates across a list of ReadGroups
Represents a reference sequence
Iterates across a list of References
Represents a reference sequence standalone object
Statistical data container