GENBANK_TAG
SequenceRecord
GTFParser
features
Gene
models
GenomeBins
rdd
GenomicPositionPartitioner
rdd
GenomicRegionPartitioner
rdd
GenotypeField
projections
GenotypeRDDFunctions
variation
GetExtraValues
Timers
GetReferenceFromReads
Timers
genbank
SequenceRecord
geneId
Transcript
geneSymbol
DatabaseVariantAnnotationField
generateAlternateConsensus
Consensus
genotype
RichGenotype
genotypeLikelihoods
GenotypeField
genotypeQuality
GenotypeField
genotypeToRichGenotype
RichGenotype
genotypes
VariantContext
gerpNr
DatabaseVariantAnnotationField
gerpRs
DatabaseVariantAnnotationField
get
GenomeBins
getAllWindows
Coverage
getCallsetSamples
VariantContextRDDFunctions
getCurrentKey
BAMFilteredRecordReader
getCurrentValue
BAMFilteredRecordReader
getEndBin
GenomeBins
getExtraValues
RecalibrationTable
getHeader
ADAMVCFOutputFormat
getIndelsInRegion
IndelTable
getIndex
RecordGroupDictionary
getLength
RichCigar
getPartition
GenomicPositionPartitioner GenomicRegionPartitioner ReferencePartitioner
getQualityEntry
RecalibrationTable
getReference
MdTag
getReferenceContext
RichAlignmentRecord
getSequenceRecordsFromElement
ADAMSequenceDictionaryRDDAggregator ADAMSpecificRecordSequenceDictionaryRDDAggregator NucleotideContigFragmentRDDFunctions AlignmentRecordRDDFunctions VariantContextRDDFunctions
getSplits
IndexedBamInputFormat
getStartBin
GenomeBins
getType
RichGenotype
globalTable
RecalibrationTable