readAncoraIntoSQLite: Read Ancora legacy CNE format
In CNEr: CNE Detection and Visualization

Description Usage Arguments Details Value Note Author(s) See Also Examples

Read Ancora legacy CNE format into a SQLite database.

1	readAncoraIntoSQLite(cneFns, dbName, overwrite=FALSE)

`cneFns`	`character`(n): filenames of Ancora CNE files.
`dbName`	`character`(1): filename of SQLite database.
`overwrite`	`boolean`(1): whether or not to overwrite the existing table.

The Ancora legacy CNE file has the filename in the format of "cne2wBf_AstMex102_danRer10_48_50". The first six columns are the coordinates of pairs of CNEs. The start coordinate system is 0-based and is converted into 1-based when it is imported into the SQLite database.

A character vector of table names.

This function is mainly for internal use in Lenhard group.

Ge Tan

readAncora

  ancoraCNEsFns <- file.path(system.file("extdata", package="CNEr"),
                             c("cne2wBf_cypCar1_danRer10_100_100",
                               "cne2wBf_cteIde1_danRer10_100_100",
                               "cne2wBf_AstMex102_danRer10_48_50"))
  dbName <- tempfile()
  readAncoraIntoSQLite(ancoraCNEsFns, dbName, overwrite=FALSE)