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A Java API for high-throughput sequencing data (HTS) formats

There is a newer version: 4.1.3

package htsjdk.beta.plugin.hapref;

import htsjdk.beta.plugin.HtsEncoderOptions;

/**
 * Class for haploid reference encoder options.
 */
public class HaploidReferenceEncoderOptions implements HtsEncoderOptions {
}