Package htsjdk.variant.vcf

Interface VCFTextTransformer

All Known Implementing Classes:
VCFPassThruTextTransformer, VCFPercentEncodedTextTransformer
public interface VCFTextTransformer
Interface for transforming attribute values embedded in VCF. VCF version 4.3 supports percent-encoding of characters that have special meaning in VCF. Pre-v43, such encoding are not supported and no transformation needs to be done.

  • Method Details

    • decodeText

      String decodeText(String rawPart)
      Transform a single string.
      Parameters:
      rawPart - the raw string to be decoded
      Returns:
      the decoded string
      Throws:
      TribbleException - if the the encoding is uninterpretable

    • decodeText

      List<String> decodeText(List<String> rawParts)
      Transform a list of strings.
      Parameters:
      rawParts - a list of raw strings
      Returns:
      a list of decoded strings
      Throws:
      TribbleException - if the the encoding is uninterpretable