Enum DataSeries

    • Enum Constant Detail

      • BF_BitFlags

        public static final DataSeries BF_BitFlags
      • CF_CompressionBitFlags

        public static final DataSeries CF_CompressionBitFlags
      • RI_RefId

        public static final DataSeries RI_RefId
      • RL_ReadLength

        public static final DataSeries RL_ReadLength
      • AP_AlignmentPositionOffset

        public static final DataSeries AP_AlignmentPositionOffset
      • RG_ReadGroup

        public static final DataSeries RG_ReadGroup
      • RN_ReadName

        public static final DataSeries RN_ReadName
      • NF_RecordsToNextFragment

        public static final DataSeries NF_RecordsToNextFragment
      • MF_MateBitFlags

        public static final DataSeries MF_MateBitFlags
      • NS_NextFragmentReferenceSequenceID

        public static final DataSeries NS_NextFragmentReferenceSequenceID
      • NP_NextFragmentAlignmentStart

        public static final DataSeries NP_NextFragmentAlignmentStart
      • TS_InsertSize

        public static final DataSeries TS_InsertSize
      • TL_TagIdList

        public static final DataSeries TL_TagIdList
      • TC_TagCount

        public static final DataSeries TC_TagCount
      • TN_TagNameAndType

        public static final DataSeries TN_TagNameAndType
      • MQ_MappingQualityScore

        public static final DataSeries MQ_MappingQualityScore
      • FN_NumberOfReadFeatures

        public static final DataSeries FN_NumberOfReadFeatures
      • FP_FeaturePosition

        public static final DataSeries FP_FeaturePosition
      • FC_FeatureCode

        public static final DataSeries FC_FeatureCode
      • BB_bases

        public static final DataSeries BB_bases
      • QQ_scores

        public static final DataSeries QQ_scores
      • QS_QualityScore

        public static final DataSeries QS_QualityScore
      • BS_BaseSubstitutionCode

        public static final DataSeries BS_BaseSubstitutionCode
      • IN_Insertion

        public static final DataSeries IN_Insertion
      • DL_DeletionLength

        public static final DataSeries DL_DeletionLength
      • RS_RefSkip

        public static final DataSeries RS_RefSkip
      • SC_SoftClip

        public static final DataSeries SC_SoftClip
      • PD_padding

        public static final DataSeries PD_padding
      • HC_HardClip

        public static final DataSeries HC_HardClip
      • TM_TestMark

        public static final DataSeries TM_TestMark
      • TV_TestMark

        public static final DataSeries TV_TestMark
    • Method Detail

      • values

        public static DataSeries[] values()
        Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:
        for (DataSeries c : DataSeries.values())
            System.out.println(c);
        
        Returns:
        an array containing the constants of this enum type, in the order they are declared
      • valueOf

        public static DataSeries valueOf​(String name)
        Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)
        Parameters:
        name - the name of the enum constant to be returned.
        Returns:
        the enum constant with the specified name
        Throws:
        IllegalArgumentException - if this enum type has no constant with the specified name
        NullPointerException - if the argument is null
      • getCanonicalName

        public String getCanonicalName()
      • getExternalBlockContentId

        public Integer getExternalBlockContentId()
      • byCanonicalName

        public static DataSeries byCanonicalName​(String dataSeriesAbbreviation)
        Return the DataSeries associated with the two-character canonical name
        Parameters:
        dataSeriesAbbreviation - A Data Series canonical name, such as QS for Quality Score
        Returns:
        the associated DataSeries
        Throws:
        CRAMException - for an unknown Data Series