R: Collect information about the package annotation DB

mirbase_dbconn {mirbase.db}

R Documentation

Collect information about the package annotation DB

Description

Some convenience functions for getting a connection object to (or collecting information about) the package annotation DB.

Usage

  mirbase_dbconn()
  mirbase_dbfile()
  mirbase_dbschema(file="", show.indices=FALSE)
  mirbase_dbInfo()

Arguments

`file`	A connection, or a character string naming the file to print to (see the `file` argument of the `cat` function for the details).
`show.indices`	The CREATE INDEX statements are not shown by default. Use `show.indices=TRUE` to get them.

Details

mirbase_dbconn returns a connection object to the package annotation DB. IMPORTANT: Don't call dbDisconnect on the connection object returned by mirbase_dbconn or you will break all the AnnDbObj objects defined in this package!

mirbase_dbfile returns the path (character string) to the package annotation DB (this is an SQLite file).

mirbase_dbschema prints the schema definition of the package annotation DB.

mirbase_dbInfo prints other information about the package annotation DB.

Value

mirbase_dbconn: a DBIConnection object representing an open connection to the package annotation DB.

mirbase_dbfile: a character string with the path to the package annotation DB.

mirbase_dbschema: none (invisible NULL).

mirbase_dbInfo: none (invisible NULL).

Examples

  ## Count the number of rows in the "ID2ACC" table:
  dbGetQuery(mirbase_dbconn(), "SELECT COUNT(*) FROM mirna")

  ## The connection object returned by mirbase_dbconn() was
  ## created with:
  dbConnect(SQLite(), dbname=mirbase_dbfile(), cache_size=64000,
  synchronous=0)

  mirbase_dbschema()

  mirbase_dbInfo()

[Package mirbase.db version 1.2.0 Index]