baseCode.misc
Class GroupMap

java.lang.Object
  baseCode.misc.GroupMap

public class GroupMap

extends java.lang.Object

A data structure representing a map between items and a single set of keys. For example, a set of probes and the genes they map to. Probes that point to the same gene are in the same "group".

Copyright (c) 2004

Institution: Columbia University

Version:

$Id: GroupMap.java,v 1.3 2004/07/27 03:18:58 pavlidis Exp $

Author:

Paul Pavlidis

Constructor Summary

GroupMap()

Method Summary

int	getUniqueItems()
boolean	hasDuplicates(java.lang.String k) For a given key, return true if it has duplicates.
int	numDuplicates(java.lang.String k) For a given key, return the number of duplicates it has (not counting itself).
java.util.Map	read(java.lang.String filename, DenseDoubleMatrix2DNamed dataMatrix) The input file format is that used by MapReader.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

GroupMap

public GroupMap()

Method Detail

getUniqueItems

public int getUniqueItems()

Returns:

int The number of unique items in the GroupMap.

hasDuplicates

public boolean hasDuplicates(java.lang.String k)

For a given key, return true if it has duplicates.

Parameters:

k - String

Returns:

boolean

numDuplicates

public int numDuplicates(java.lang.String k)

For a given key, return the number of duplicates it has (not counting itself).

Parameters:

k - String

Returns:

int

read

public java.util.Map read(java.lang.String filename,
                          DenseDoubleMatrix2DNamed dataMatrix)
                   throws java.io.IOException

The input file format is that used by MapReader.

Parameters:

filename - Duplicate map file name to be read by a MapReader.

dataMatrix - Data file this the map refers to.

Returns:

Map

Throws:

java.io.IOException