Package com.github.heuermh.adam.explorer

Class ADAMExplorer

  • public final class ADAMExplorer
extends Object
    Interactive explorer for ADAM genomics data models.
    Author:
    Michael Heuer

    • Constructor Summary

      Constructors 
      Constructor Description
      ADAMExplorer()  

    • Method Summary

      All Methods Static Methods Concrete Methods 
      Modifier and Type Method Description
      static int explore​(org.bdgenomics.adam.ds.feature.FeatureDataset features)
      Explore the specified features.
      static int explore​(org.bdgenomics.adam.ds.fragment.FragmentDataset fragments)
      Explore the specified fragments.
      static int explore​(org.bdgenomics.adam.ds.read.AlignmentDataset alignments)
      Explore the specified alignments.
      static int explore​(org.bdgenomics.adam.ds.read.ReadDataset reads)
      Explore the specified reads.
      static int explore​(org.bdgenomics.adam.ds.sequence.SequenceDataset sequences)
      Explore the specified sequences.
      static int explore​(org.bdgenomics.adam.ds.sequence.SliceDataset slices)
      Explore the specified slices.
      static int explore​(org.bdgenomics.adam.ds.variant.GenotypeDataset genotypes)
      Explore the specified genotypes.
      static int explore​(org.bdgenomics.adam.ds.variant.VariantDataset variants)
      Explore the specified variants.

    • Constructor Detail

      • ADAMExplorer

        public ADAMExplorer()

    • Method Detail

      • explore

        public static int explore​(org.bdgenomics.adam.ds.read.AlignmentDataset alignments)
        Explore the specified alignments.
        Parameters:
        alignments - alignments to explore, must not be null
        Returns:
        an exit code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.feature.FeatureDataset features)
        Explore the specified features.
        Parameters:
        features - features to explore, must not be null
        Returns:
        an exit code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.fragment.FragmentDataset fragments)
        Explore the specified fragments.
        Parameters:
        fragments - fragments to explore, must not be null
        Returns:
        an exit code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.variant.GenotypeDataset genotypes)
        Explore the specified genotypes.
        Parameters:
        genotypes - genotypes to explore, must not be null
        Returns:
        an exit code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.read.ReadDataset reads)
        Explore the specified reads.
        Parameters:
        reads - reads to explore, must not be null
        Returns:
        an error code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.sequence.SequenceDataset sequences)
        Explore the specified sequences.
        Parameters:
        sequences - sequences to explore, must not be null
        Returns:
        an error code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.sequence.SliceDataset slices)
        Explore the specified slices.
        Parameters:
        slices - slices to explore, must not be null
        Returns:
        an error code

      • explore

        public static int explore​(org.bdgenomics.adam.ds.variant.VariantDataset variants)
        Explore the specified variants.
        Parameters:
        variants - variants to explore, must not be null
        Returns:
        an exit code