Object/Class

org.bdgenomics.adam.rdd.variant

VariantContextDataset

Related Docs: class VariantContextDataset | package variant

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object VariantContextDataset extends Serializable

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  1. final def !=(arg0: Any): Boolean

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  2. final def ##(): Int

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  3. final def ==(arg0: Any): Boolean

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  4. def apply(ds: Dataset[VariantContext], sequences: SequenceDictionary, samples: Iterable[Sample], headerLines: Seq[VCFHeaderLine]): VariantContextDataset

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    Builds a VariantContextDataset from a Dataset.

    Builds a VariantContextDataset from a Dataset.

    ds

    The underlying VariantContext dataset.

    sequences

    The sequence dictionary for the genomic dataset.

    samples

    The samples for the genomic dataset.

    headerLines

    The header lines for the genomic dataset.

    returns

    A new VariantContextDataset.

  5. def apply(ds: Dataset[VariantContext], references: Iterable[Reference], samples: Iterable[Sample], headerLines: Seq[VCFHeaderLine]): VariantContextDataset

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    Builds a VariantContextDataset from a Dataset.

    Builds a VariantContextDataset from a Dataset.

    ds

    The underlying VariantContext dataset.

    references

    The references for the genomic dataset.

    samples

    The samples for the genomic dataset.

    headerLines

    The header lines for the genomic dataset.

    returns

    A new VariantContextDataset.

  6. def apply(ds: Dataset[VariantContext]): VariantContextDataset

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    Builds a VariantContextDataset from a Dataset.

    Builds a VariantContextDataset from a Dataset.

    ds

    The underlying VariantContext dataset.

    returns

    A new VariantContextDataset.

  7. def apply(rdd: RDD[VariantContext], sequences: SequenceDictionary, samples: Iterable[Sample], headerLines: Seq[VCFHeaderLine] = DefaultHeaderLines.allHeaderLines): VariantContextDataset

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    Builds a VariantContextDataset from an RDD.

    Builds a VariantContextDataset from an RDD.

    rdd

    The underlying VariantContext RDD.

    sequences

    The sequence dictionary for the genomic dataset.

    samples

    The samples for the genomic dataset.

    headerLines

    The header lines for the genomic dataset.

    returns

    A new VariantContextDataset.

  8. def apply(rdd: RDD[VariantContext], references: Iterable[Reference], samples: Iterable[Sample], headerLines: Seq[VCFHeaderLine]): VariantContextDataset

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    Builds a VariantContextDataset from an RDD.

    Builds a VariantContextDataset from an RDD.

    rdd

    The underlying VariantContext RDD.

    references

    The references for the genomic dataset.

    samples

    The samples for the genomic dataset.

    headerLines

    The header lines for the genomic dataset.

    returns

    A new VariantContextDataset.

  9. final def asInstanceOf[T0]: T0

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  10. def clone(): AnyRef

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  13. def finalize(): Unit

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  14. final def getClass(): Class[_]

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  15. def hashCode(): Int

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  16. final def isInstanceOf[T0]: Boolean

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  17. final def ne(arg0: AnyRef): Boolean

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  18. final def notify(): Unit

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  19. final def notifyAll(): Unit

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  20. final def synchronized[T0](arg0: ⇒ T0): T0

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  21. def toString(): String

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