htsjdk.tribble.util

Class TabixUtils

java.lang.Object

htsjdk.tribble.util.TabixUtils

public class TabixUtils
extends java.lang.Object

classes that have anything to do with tabix

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	TabixUtils.TIndex
static class	TabixUtils.TIntv
static class	TabixUtils.TPair64

Field Summary

Fields

Modifier and Type	Field and Description
static java.lang.String	STANDARD_INDEX_EXTENSION

Constructor Summary

Constructors

Constructor and Description
TabixUtils()

Method Summary

Modifier and Type	Method and Description
static SAMSequenceDictionary	getSequenceDictionary(java.io.File tabixIndex) Generates the SAMSequenceDictionary from the given tabix index file
static boolean	less64(long u, long v)

Methods inherited from class java.lang.Object

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

Field Detail

STANDARD_INDEX_EXTENSION

public static final java.lang.String STANDARD_INDEX_EXTENSION

See Also:

Constant Field Values

Constructor Detail

TabixUtils

public TabixUtils()

Method Detail

less64

public static boolean less64(long u,
                             long v)

getSequenceDictionary

public static SAMSequenceDictionary getSequenceDictionary(java.io.File tabixIndex)

Generates the SAMSequenceDictionary from the given tabix index file

Parameters:

tabixIndex - the tabix index file

Returns:

non-null sequence dictionary