variation

Type Members

1. class ADAMVCFOutputFormat[K] extends KeyIgnoringVCFOutputFormat[K] with Serializable

   Wrapper for Hadoop-BAM to work around requirement for no-args constructor.

2. class ConcordanceTable extends AnyRef

   Helper class for maintaining the genotype concordance table and computing the relevant metrics.

3. class GenotypeRDDFunctions extends Serializable with Logging

4. case class GenotypesSummary(perSampleStatistics: StatisticsMap, singletonCount: Long, distinctVariantCount: Long) extends Product with Serializable

   Summary statistics for a set of genotypes.

5. case class GenotypesSummaryCounts(genotypesCounts: GenotypeAlleleCounts, singleNucleotideVariantCounts: VariantCounts, multipleNucleotideVariantCount: Long, insertionCount: Long, deletionCount: Long, readCount: Option[Long], phasedCount: Long) extends Product with Serializable

   Simple counts of various properties across a set of genotypes.

6. class VariantContextRDDFunctions extends ADAMSequenceDictionaryRDDAggregator[VariantContext] with Logging