picard.fingerprint

Class CrosscheckMetric

java.lang.Object

htsjdk.samtools.metrics.MetricBase

picard.fingerprint.CrosscheckMetric

Direct Known Subclasses:

ClusteredCrosscheckMetric

public class CrosscheckMetric
extends htsjdk.samtools.metrics.MetricBase

A class to hold the result of crosschecking fingerprints. The same metric will be used for crosschecking Readgroups, libraries, samples, or files.

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	CrosscheckMetric.DataType
static class	CrosscheckMetric.FingerprintResult

Field Summary

Fields

Modifier and Type	Field and Description
CrosscheckMetric.DataType	DATA_TYPE
java.lang.String	LEFT_FILE
java.lang.String	LEFT_GROUP_VALUE
java.lang.Integer	LEFT_LANE
java.lang.String	LEFT_LIBRARY
java.lang.String	LEFT_MOLECULAR_BARCODE_SEQUENCE
java.lang.String	LEFT_RUN_BARCODE
java.lang.String	LEFT_SAMPLE
java.lang.Double	LOD_SCORE
java.lang.Double	LOD_SCORE_NORMAL_TUMOR
java.lang.Double	LOD_SCORE_TUMOR_NORMAL
CrosscheckMetric.FingerprintResult	RESULT
java.lang.String	RIGHT_FILE
java.lang.String	RIGHT_GROUP_VALUE
java.lang.Integer	RIGHT_LANE
java.lang.String	RIGHT_LIBRARY
java.lang.String	RIGHT_MOLECULAR_BARCODE_SEQUENCE
java.lang.String	RIGHT_RUN_BARCODE
java.lang.String	RIGHT_SAMPLE

Constructor Summary

Constructors

Constructor and Description
CrosscheckMetric()

Method Summary

Methods inherited from class htsjdk.samtools.metrics.MetricBase

equals, hashCode, toString

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

LEFT_GROUP_VALUE

public java.lang.String LEFT_GROUP_VALUE

RIGHT_GROUP_VALUE

public java.lang.String RIGHT_GROUP_VALUE

RESULT

public CrosscheckMetric.FingerprintResult RESULT

DATA_TYPE

public CrosscheckMetric.DataType DATA_TYPE

LOD_SCORE

public java.lang.Double LOD_SCORE

LOD_SCORE_TUMOR_NORMAL

public java.lang.Double LOD_SCORE_TUMOR_NORMAL

LOD_SCORE_NORMAL_TUMOR

public java.lang.Double LOD_SCORE_NORMAL_TUMOR

LEFT_RUN_BARCODE

public java.lang.String LEFT_RUN_BARCODE

LEFT_LANE

public java.lang.Integer LEFT_LANE

LEFT_MOLECULAR_BARCODE_SEQUENCE

public java.lang.String LEFT_MOLECULAR_BARCODE_SEQUENCE

LEFT_LIBRARY

public java.lang.String LEFT_LIBRARY

LEFT_SAMPLE

public java.lang.String LEFT_SAMPLE

LEFT_FILE

public java.lang.String LEFT_FILE

RIGHT_RUN_BARCODE

public java.lang.String RIGHT_RUN_BARCODE

RIGHT_LANE

public java.lang.Integer RIGHT_LANE

RIGHT_MOLECULAR_BARCODE_SEQUENCE

public java.lang.String RIGHT_MOLECULAR_BARCODE_SEQUENCE

RIGHT_LIBRARY

public java.lang.String RIGHT_LIBRARY

RIGHT_SAMPLE

public java.lang.String RIGHT_SAMPLE

RIGHT_FILE

public java.lang.String RIGHT_FILE

Constructor Detail

CrosscheckMetric

public CrosscheckMetric()