public class GenotypeConcordanceContingencyMetrics
extends htsjdk.samtools.metrics.MetricBase
Modifier and Type | Field and Description |
---|---|
java.lang.String |
CALL_SAMPLE
The name of the 'call' sample
|
long |
EMPTY_COUNT
The empty (no contingency info) count across all variants
|
long |
FN_COUNT
The FN (false negative) count across all variants
|
long |
FP_COUNT
The FP (false positive) count across all variants
|
long |
TN_COUNT
The TN (true negative) count across all variants
|
long |
TP_COUNT
The TP (true positive) count across all variants
|
java.lang.String |
TRUTH_SAMPLE
The name of the 'truth' sample
|
htsjdk.variant.variantcontext.VariantContext.Type |
VARIANT_TYPE
The type of the event (i.e.
|
Constructor and Description |
---|
GenotypeConcordanceContingencyMetrics()
Empty constructor - needed for unit tests
|
GenotypeConcordanceContingencyMetrics(htsjdk.variant.variantcontext.VariantContext.Type variantType,
GenotypeConcordanceCounts concordanceCounts,
java.lang.String truthSample,
java.lang.String callSample,
boolean missingSitesFlag) |
public htsjdk.variant.variantcontext.VariantContext.Type VARIANT_TYPE
public java.lang.String TRUTH_SAMPLE
public java.lang.String CALL_SAMPLE
public long TP_COUNT
public long TN_COUNT
public long FP_COUNT
public long FN_COUNT
public long EMPTY_COUNT
public GenotypeConcordanceContingencyMetrics()
public GenotypeConcordanceContingencyMetrics(htsjdk.variant.variantcontext.VariantContext.Type variantType, GenotypeConcordanceCounts concordanceCounts, java.lang.String truthSample, java.lang.String callSample, boolean missingSitesFlag)