object SequenceDataset

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  4. val FASTA_LINE_WIDTH: String

    Hadoop configuration path to specify line width at which to hard wrap FASTA formatted sequences.

    Hadoop configuration path to specify line width at which to hard wrap FASTA formatted sequences. Defaults to 60.

  5. def apply(rdd: RDD[Sequence], references: SequenceDictionary, samples: Iterable[Sample]): SequenceDataset

    A genomic dataset that wraps an RDD of Sequence data.

    A genomic dataset that wraps an RDD of Sequence data.

    rdd

    The underlying Sequence RDD to build from.

    references

    The reference genome these data are aligned to.

    samples

    Samples for these sequences.

    returns

    Returns a new SequenceDataset.

  6. def apply(rdd: RDD[Sequence]): SequenceDataset

    A genomic dataset that wraps an RDD of Sequence data.

    A genomic dataset that wraps an RDD of Sequence data.

    rdd

    The underlying Sequence RDD to build from.

    returns

    Returns a new SequenceDataset.

  7. def apply(ds: Dataset[Sequence], references: SequenceDictionary, samples: Iterable[Sample]): SequenceDataset

    A genomic dataset that wraps a dataset of Sequence data.

    A genomic dataset that wraps a dataset of Sequence data.

    ds

    A Dataset of sequences.

    references

    The reference genome these data are aligned to.

    samples

    Samples for these sequences.

  8. def apply(ds: Dataset[Sequence]): SequenceDataset

    A genomic dataset that wraps a dataset of Sequence data.

    A genomic dataset that wraps a dataset of Sequence data.

    ds

    A Dataset of sequences.

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