Quickload Access

Description

The Quickload class represents a Quickload data source, essentially directory layout separating tracks and sequences by genome, along with a few metadata files. This interface abstracts those details and provides access to a Quickload at any URL supported by R (HTTP, FTP, and local files). This is an easy way to make data accessible to the Integrated Genome Browser (IGB).

Constructor

Quickload(uri = "quickload", create = FALSE)

Constructs a new Quickload object, representing a repository at uri. If create is TRUE, and uri is writeable (i.e., local), the repository is created if it does not already exist. If it does exist, then a message is emitted to indicate that the repository was not recreated.

Accessor Methods

In the code snippets below, x represents a Quickload object.

x$genome, x[["genome"]]

Get the QuickloadGenome object for the genome named genome. This is where all the data is stored.

length(x)

number of genomes in the repository

uri(x)

Get the URI pointing to the Quickload repository.

genome(x), names(x)

Get the identifiers of the genomes present in the repository.

Author(s)

Michael Lawrence

Examples

ql <- Quickload(system.file("tests", "quickload", package = "rtracklayer"))
uri(ql)
genome(ql)
ql$T_species_Oct_2011