PacBioAlnH5-class: Class "PacBioAlnH5"

In PacificBiosciences/R-pbh5: Interface to Pacific Biosciences HDF5 Files

Description

The align h5 (aln.h5) class represents pairwise alignments. This file is not produced by default and is one of the least well supported of the PacBio hdf5 file formats.

Objects from the Class

Objects can be created by calls of the form PacBioAlnH5(fileName).

Slots

ZMWs:

Object of class "matrix" describing how the file can be indexed.

alignment:

Object of class "H5Obj" pointing to alignment group in hdf5 file.

version:

Object of class "stringOrNull"

fileName:

Object of class "character"

ePtr:

Object of class "externalptr" points to the H5File.

Extends

Class "PacBioDataFile", directly. Class "H5File", by class "PacBioDataFile", distance 2. Class "H5Obj", by class "PacBioDataFile", distance 3. Class "H5ObjOrNull", by class "PacBioDataFile", distance 4.

Methods

getAlignments

signature(h5Obj = "PacBioAlnH5"): ...

nrow

signature(x = "PacBioAlnH5"): ...

Examples

  showClass("PacBioAlnH5")

PacificBiosciences/R-pbh5 documentation built on May 7, 2019, 11:54 p.m.