mysql.build: Build annovarR database in mysql

In annovarR: Integrated Framework to Annotate Genetic Variants

Description

Build annovarR database in mysql

Usage

mysql.build(filename = "", mysql.connect.params = list(host = "", dbname =
  "", table.name = "", user = "", password = ""), dat = data.table(),
  fread.params = list(), new.colnames = NULL, verbose = FALSE, ...)

Arguments

filename	Path of raw data, will be read by fread
mysql.connect.params	Mysql parameters, [host, dbname, table.name, user, password etc.]
dat	Object of data.table, as the input data to build database
fread.params	Other parameters be used in fread
new.colnames	New colnames of table, default is to retain the original
verbose	Ligical indicating wheather show the log message
...	Other parameters be used in dbWriteTable

Examples

test.dat <- system.file('extdata', 'demo/sqlite.dat.txt', package = 'annovarR')
## Not run: 
mysql.build(test.dat, list(host = 'host', dbname = 'db', 
table.name = 'table', user = 'user', password = 'password'))

## End(Not run)

annovarR documentation built on Jan. 9, 2018, 5:05 p.m.