getTargetRow {SAGElyzer}R Documentation

Function that retrieves data from selected SAGE libraries for a given SAGE tag

Description

Given a SAGE tag, this function queries an existing table in a database and retrieves data across all the selected SAGE libraies for that SAGE tag

Usage

getTargetRow(dbArgs, conn, libs, tagColName, targetSAGE, what = "counts")

Arguments

dbArgs dbArgs a list containing arguments needed to make connection to a database and queries against a table. The elements include a DSN under Windows and database name, user name, password, and host under Unix plus the names for three tables that will be used by functions of SAGElyzer
conn conn a connection to a database
libs libs a vector of character strings for column names of database table where SAGE library data are stored
tagColName tagColName a character string for the column name of a database table where SAGE tags are stored
targetSAGE targetSAGE a character string for the SAGE tag whose counts across SAGE libraries will be retrieved
what what a character string that is either "counts", "info", or "map" to indicating the what database table to use

Details

This function is called by SAGELyzer for the calculation of nearest neighbors for a given SAGE tag. It may not have much other practical use.

Value

getTargetRow returns a vector containing the data retrieved

Note

This function is part of the Bioconductor project at Dana-Farber Cancer Institute to provide Bioinformatics functionalities through R

Author(s)

Jianhua Zhang

Examples

  # No example is give as the function needs a database support

[Package SAGElyzer version 1.4.2 Index]