Constructor Detail

• GenotypeReader

  public GenotypeReader()

  Deprecated. 

Method Detail

• read

  public GenotypeReader.VariantIterator read(File file)

  Deprecated. Please use VCFFileReader in Picard-public instead of this class.
  Reads in a file that contains genotype data and returns an iterator over every entry in the file as VariantContext objects.

• read

  public GenotypeReader.VariantIterator read(File file,
                                             htsjdk.samtools.util.IntervalList intervals)

  Deprecated. Please use VCFFileReader in Picard-public instead of this class.
  Reads in the file and returns an iterator over the set of entries in the file that overlap with the interval supplied.