picard.arrays.illumina

Class InfiniumDataFile

java.lang.Object

picard.arrays.illumina.InfiniumDataFile

Direct Known Subclasses:

InfiniumEGTFile, InfiniumGTCFile

public abstract class InfiniumDataFile
extends java.lang.Object

A class to provide methods for accessing Illumina Infinium Data Files.

Method Summary

Modifier and Type	Method and Description
static char[]	byteArrayToCharArray(byte[] stringBytes)
static float	byteArrayToFloat(byte[] bytes) Utility method to convert a byte array to a float value.
static int	byteArrayToInt(byte[] bytes) Utility method to convert an unsigned short to an int.
static byte[]	floatToByteArray(float floatValue) Utility method to convert a float to a byte array
java.lang.String	getIdentifier()
void	setIdentifier(java.lang.String identifier)
static byte[]	shortToByteArray(short value) Utility method to convert a short to a byte array

Methods inherited from class java.lang.Object

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

Method Detail

byteArrayToCharArray

public static char[] byteArrayToCharArray(byte[] stringBytes)

byteArrayToInt

public static int byteArrayToInt(byte[] bytes)

Utility method to convert an unsigned short to an int.

Parameters:

bytes - The byte array representing the unsigned short. (Java has no unsigned values which is why we promote it to an int)

Returns:

The converted int.

shortToByteArray

public static byte[] shortToByteArray(short value)

Utility method to convert a short to a byte array

Parameters:

value - The short value to convert to byte array

Returns:

The byte array containing the short in little endian format.

byteArrayToFloat

public static float byteArrayToFloat(byte[] bytes)

Utility method to convert a byte array to a float value.

Parameters:

bytes - The byte array representing the float value.

Returns:

The converted float.

floatToByteArray

public static byte[] floatToByteArray(float floatValue)

Utility method to convert a float to a byte array

Parameters:

floatValue - the float value to convert to byte array

Returns:

The byte array containing the float in little endian format.

getIdentifier

public java.lang.String getIdentifier()

setIdentifier

public void setIdentifier(java.lang.String identifier)