Package 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.
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Nested Class Summary
Nested ClassesModifier and TypeClassDescriptionstatic enum
The data type.static enum
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Field Summary
FieldsModifier and TypeFieldDescriptionThe data type that was being compared.The LEFT file from which the fingerprint was obtained.The LEFT group value.The LEFT lane.The LEFT library identifier.The LEFT molecular (sample) barcode.The LEFT run barcode (PU field) expected to look like : D047KACXX110901.1.ACCAACTG.The LEFT sample identifier.The resulting LOD score comparing LEFT and RIGHT data.The resulting LOD score comparing LEFT as normal and RIGHT as tumor.The resulting LOD score comparing LEFT as tumor and RIGHT as normal.The overall result of the match.The RIGHT file from which the fingerprint was obtained.The RIGHT group value.The RIGHT lane.The RIGHT library identifier.The RIGHT molecular (sample) barcode.The RIGHT run barcode (PU field) expected to look like : D047KACXX110901.1.ACCAACTG.The RIGHT sample identifier. -
Constructor Summary
Constructors -
Method Summary
Methods inherited from class htsjdk.samtools.metrics.MetricBase
equals, hashCode, toString
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Field Details
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LEFT_GROUP_VALUE
The LEFT group value. -
RIGHT_GROUP_VALUE
The RIGHT group value. -
RESULT
The overall result of the match. -
DATA_TYPE
The data type that was being compared. -
LOD_SCORE
The resulting LOD score comparing LEFT and RIGHT data. -
LOD_SCORE_TUMOR_NORMAL
The resulting LOD score comparing LEFT as tumor and RIGHT as normal. -
LOD_SCORE_NORMAL_TUMOR
The resulting LOD score comparing LEFT as normal and RIGHT as tumor. -
LEFT_RUN_BARCODE
The LEFT run barcode (PU field) expected to look like : D047KACXX110901.1.ACCAACTG. -
LEFT_LANE
The LEFT lane. -
LEFT_MOLECULAR_BARCODE_SEQUENCE
The LEFT molecular (sample) barcode. -
LEFT_LIBRARY
The LEFT library identifier. -
LEFT_SAMPLE
The LEFT sample identifier. -
LEFT_FILE
The LEFT file from which the fingerprint was obtained. -
RIGHT_RUN_BARCODE
The RIGHT run barcode (PU field) expected to look like : D047KACXX110901.1.ACCAACTG. -
RIGHT_LANE
The RIGHT lane. -
RIGHT_MOLECULAR_BARCODE_SEQUENCE
The RIGHT molecular (sample) barcode. -
RIGHT_LIBRARY
The RIGHT library identifier. -
RIGHT_SAMPLE
The RIGHT sample identifier. -
RIGHT_FILE
The RIGHT file from which the fingerprint was obtained.
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Constructor Details
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CrosscheckMetric
public CrosscheckMetric()
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