KEGG_dbconn {KEGG.db} | R Documentation |
Some convenience functions for getting a connection object to (or collecting information about) the package annotation DB.
KEGG_dbconn() KEGG_dbfile() KEGG_dbschema(file="", show.indices=FALSE) KEGG_dbInfo()
file |
A connection, or a character string naming the file to print to (see
the |
show.indices |
The CREATE INDEX statements are not shown by default.
Use |
KEGG_dbconn
returns a connection object to the
package annotation DB. IMPORTANT: Don't call
dbDisconnect
on the connection object
returned by KEGG_dbconn
or you will break all the
AnnDbObj
objects defined
in this package!
KEGG_dbfile
returns the path (character string) to the
package annotation DB (this is an SQLite file).
KEGG_dbschema
prints the schema definition of the
package annotation DB.
KEGG_dbInfo
prints other information about the package
annotation DB.
KEGG_dbconn
: a DBIConnection object representing an
open connection to the package annotation DB.
KEGG_dbfile
: a character string with the path to the
package annotation DB.
KEGG_dbschema
: none (invisible NULL
).
KEGG_dbInfo
: none (invisible NULL
).
dbGetQuery
,
dbConnect
,
dbconn
,
dbfile
,
dbschema
,
dbInfo
## Count the number of rows in the "pathway2name" table: dbGetQuery(KEGG_dbconn(), "SELECT COUNT(*) FROM pathway2name") ## The connection object returned by KEGG_dbconn() was ## created with: dbConnect(SQLite(), dbname=KEGG_dbfile(), cache_size=64000, synchronous=0) KEGG_dbschema() KEGG_dbInfo()