getTargetRow {SAGElyzer}R Documentation

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


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


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


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


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.


getTargetRow returns a vector containing the data retrieved


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


Jianhua Zhang


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

[Package SAGElyzer version 1.4.2 Index]