GenomicFeatures (version 1.24.4)

FeatureDb-class: FeatureDb objects

Description

The FeatureDb class is a generic container for storing genomic locations of an arbitrary type of genomic features. See ?TxDb for a container for storing transcript annotations.

See ?makeFeatureDbFromUCSC for a convenient way to make FeatureDb objects from BioMart online resources.

Methods

In the code snippets below, x is a FeatureDb object.

metadata(x): Return x's metadata in a data frame.

See Also

• The TxDb class for storing transcript annotations.
• makeFeatureDbFromUCSC for a convenient way to make a FeatureDb object from UCSC online resources.
• saveDb and loadDb for saving and loading the database content of a FeatureDb object.
• features for how to extract genomic features from a FeatureDb object.

Examples

fdb_file <- system.file("extdata", "FeatureDb.sqlite",
                        package="GenomicFeatures")
fdb <- loadDb(fdb_file)
fdb