SGSeq (version 1.4.0)

slots: Accessing and replacing metadata columns

Description

Accessor and replacement functions for metadata columns.

Usage

type(object)
type(object) <- value
txName(object)
txName(object) <- value
geneName(object)
geneName(object) <- value
featureID(object)
featureID(object) <- value
geneID(object)
geneID(object) <- value
splice5p(object)
splice5p(object) <- value
splice3p(object)
splice3p(object) <- value
from(object)
from(object) <- value
to(object)
to(object) <- value
segmentID(object)
segmentID(object) <- value
variantID(object)
variantID(object) <- value
eventID(object)
eventID(object) <- value
closed5p(object)
closed5p(object) <- value
closed3p(object)
closed3p(object) <- value
variantType(object)
variantType(object) <- value
variantName(object)
variantName(object) <- value
featureID5p(object)
featureID5p(object) <- value
featureID3p(object)
featureID3p(object) <- value
"type"(object)
"type"(object)
"type"(object)
"type"(object) <- value
"type"(object) <- value
"type"(object) <- value
"txName"(object)
"txName"(object)
"txName"(object)
"txName"(object) <- value
"txName"(object) <- value
"txName"(object) <- value
"geneName"(object)
"geneName"(object)
"geneName"(object)
"geneName"(object) <- value
"geneName"(object) <- value
"geneName"(object) <- value
"featureID"(object)
"featureID"(object)
"featureID"(object)
"featureID"(object) <- value
"featureID"(object) <- value
"featureID"(object) <- value
"geneID"(object)
"geneID"(object)
"geneID"(object)
"geneID"(object) <- value
"geneID"(object) <- value
"geneID"(object) <- value
"splice5p"(object)
"splice5p"(object)
"splice5p"(object)
"splice5p"(object) <- value
"splice5p"(object) <- value
"splice5p"(object) <- value
"splice3p"(object)
"splice3p"(object)
"splice3p"(object)
"splice3p"(object) <- value
"splice3p"(object) <- value
"splice3p"(object) <- value
"segmentID"(object)
"segmentID"(object)
"segmentID"(object) <- value
"segmentID"(object) <- value
"from"(object)
"from"(object)
"from"(object) <- value
"from"(object) <- value
"to"(object)
"to"(object)
"to"(object) <- value
"to"(object) <- value
"eventID"(object)
"eventID"(object)
"eventID"(object) <- value
"eventID"(object) <- value
"variantID"(object)
"variantID"(object)
"variantID"(object) <- value
"variantID"(object) <- value
"closed5p"(object)
"closed5p"(object)
"closed5p"(object) <- value
"closed5p"(object) <- value
"closed3p"(object)
"closed3p"(object)
"closed3p"(object) <- value
"closed3p"(object) <- value
"variantName"(object)
"variantName"(object)
"variantName"(object) <- value
"variantName"(object) <- value
"variantType"(object)
"variantType"(object)
"variantType"(object) <- value
"variantType"(object) <- value
"featureID5p"(object)
"featureID5p"(object)
"featureID5p"(object) <- value
"featureID5p"(object) <- value
"featureID3p"(object)
"featureID3p"(object)
"featureID3p"(object) <- value
"featureID3p"(object) <- value

Arguments

object

Object containing metadata column

value

Replacement value

Value

Content of metadata column for accessor functions or updated object for replacement functions.

Details

S4 classes defined in the SGSeq package contain metadata columns that store information for each element in the object. For example, class TxFeatures contains a column type that indicates feature type. The specific columns contained in an object depend on its class.

To facilitate accessing and modifying metadata columns, for each column there exists a function with name identical to the column name that can be used to access and modify it (see examples).

Examples

head(type(txf_ann))
head(type(sgf_ann))