umcg.genetica.io.bedgraph

Class BedGraphFile

java.lang.Object

umcg.genetica.io.bedgraph.BedGraphFile

All Implemented Interfaces:

Iterable<BedGraphEntry>

public class BedGraphFile
extends Object
implements Iterable<BedGraphEntry>

Author:

Patrick Deelen

Constructor Summary

Constructors

Constructor and Description
BedGraphFile(File bedGraphFile)
BedGraphFile(File bedGraphFile, boolean omitChr, boolean makeOneBased)
BedGraphFile(String bedGraphFilePath)
BedGraphFile(String bedGraphFilePath, boolean omitChr, boolean makeOneBased)

Method Summary

Modifier and Type	Method and Description
PerChrIntervalTree<BedGraphEntry>	createIntervalTree()
Iterator<BedGraphEntry>	iterator()

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Constructor Detail

BedGraphFile

public BedGraphFile(String bedGraphFilePath)
             throws FileNotFoundException,
                    IOException

Throws:

FileNotFoundException

IOException

BedGraphFile

public BedGraphFile(String bedGraphFilePath,
                    boolean omitChr,
                    boolean makeOneBased)
             throws FileNotFoundException,
                    IOException

Throws:

FileNotFoundException

IOException

BedGraphFile

public BedGraphFile(File bedGraphFile)
             throws FileNotFoundException,
                    IOException

Throws:

FileNotFoundException

IOException

BedGraphFile

public BedGraphFile(File bedGraphFile,
                    boolean omitChr,
                    boolean makeOneBased)
             throws FileNotFoundException,
                    IOException

Throws:

FileNotFoundException

IOException

Method Detail

iterator

public Iterator<BedGraphEntry> iterator()

Specified by:

iterator in interface Iterable<BedGraphEntry>

createIntervalTree

public PerChrIntervalTree<BedGraphEntry> createIntervalTree()
                                                     throws Exception

Throws:

Exception