ParquetFileTraversable
util
ParquetLogger
util
ParsedFilter
BucketComparisons
PhredUtils
util
Pileup
util
PileupEvent
util
PileupTraversable
util
PointComparisons
metrics
PredicateUtils
predicates
Projection
projections
pairedFirstPrimaryMappedReads
ReadBucket
pairedFirstSecondaryMappedReads
ReadBucket
pairedInSequencing
FlagStatMetrics
pairedSecondPrimaryMappedReads
ReadBucket
pairedSecondSecondaryMappedReads
ReadBucket
parseAttribute
AttributeUtils
parseAttributes
AttributeUtils
parseFilterString
BucketComparisons
parsePoint
BucketComparisons
partitionAndJoin
RegionJoin
parts
CovariateKey
passedQualityChecks
DecadentRead
passedVendorQualityChecks
ADAMRecordConditions
passesFilter
EqualityFilter
InequalityFilter
WrapperFilter
CombinedFilter
GeneratorFilter
paths
ParquetFileTraversable
pattern
RegExp
patternString
RegExp
perSampleStatistics
GenotypesSummary
phaseQuality
ADAMGenotypeField
phaseSetId
ADAMGenotypeField
phasedCount
GenotypesSummaryCounts
phred
QualityScore
phredToErrorProbability
PhredUtils
phredToErrorProbabilityCache
PhredUtils
phredToSuccessProbability
PhredUtils
phredToSuccessProbabilityCache
PhredUtils
phylop
ADAMDatabaseVariantAnnotationField
pileups
ADAMRod
ploidy
RichADAMGenotype
plugins
adam
pointRegex
BucketComparisons
points
BaseQualityScores
DupeMismatch
MapQualityScores
pos
ReferencePosition
position
ADAMRod
ADAMVariantContext
ADAMVariantField
precision
ConcordanceTable
predicate
ADAMPlugin
AccessControl
EmptyAccessControl
predicates
adam
previous
RangeAccumulator
primaryAlignment
ADAMRecordField
primaryMapped
SingleReadBucket
processingDescription
ADAMGenotypeField
projection
ADAMPlugin
ComparisonTraversalEngine
projections
adam
properPair
ADAMRecordField
properlyPaired
FlagStatMetrics