AlignedDataFrame-class: (Legacy) "AlignedDataFrame" representing alignment...

In Bioconductor/ShortRead: FASTQ input and manipulation

(Legacy) "AlignedDataFrame" representing alignment annotations as a data frame

Description

This class extends AnnotatedDataFrame. It is a data frame and associated metadata (describing the columns of the data frame). The main purpose of this class is to contain alignment data in addition to the central information of AlignedRead.

Objects from the Class

Objects from the class are created by calls to the AlignedDataFrame function.

Slots

data:

Object of class "data.frame" containing the data. See AnnotatedDataFrame for details.

varMetadata:

Object of class "data.frame" describing columns of data. See AnnotatedDataFrame for details.

dimLabels:

Object of class character describing the dimensions of the AnnotatedDataFrame. Used internally; see AnnotatedDataFrame for details.

.__classVersion__:

Object of class "Versions" describing the version of this object. Used internally; see AnnotatedDataFrame for details.

Extends

Class "AnnotatedDataFrame", directly. Class "Versioned", by class "AnnotatedDataFrame", distance 2.

Methods

This class inherits methods pData (to retrieve the underlying data frame) and varMetadata (to retrieve the metadata) from AnnotatedDataFrame.

Additional methods include:

append

signature(x = "AlignedDataFrame", values = "AlignedDataFrame"): append values after x. varMetadata of x and y must be identical; pData and varMetadata are appended using rbind.

Author(s)

Martin Morgan <[e-mail]>

See Also

AnnotatedDataFrame

Bioconductor/ShortRead documentation built on Nov. 2, 2024, 4:38 p.m.