A B C D E F G H I K L M N O P Q R S T U V W X Y

T

TAG_TO_KEEP - Variable in class uk.ac.sanger.npg.picard.BamReadTrimmer

TAG_TO_KEEP - Variable in class uk.ac.sanger.npg.picard.BamTagStripper

TAG_TO_STRIP - Variable in class uk.ac.sanger.npg.picard.BamTagStripper

Tile - Class in uk.ac.sanger.npg.illumina

Process an illumina tile

Tile(String, String, String, int, int, HashMap<String, int[]>, boolean, boolean, String, String) - Constructor for class uk.ac.sanger.npg.illumina.Tile

TILE_LIMIT - Variable in class uk.ac.sanger.npg.illumina.Illumina2bam

toArray() - Method in class uk.ac.sanger.npg.illumina.file.reader.PositionFileReader.Position

TRIM_BASE_TAG - Variable in class uk.ac.sanger.npg.picard.BamReadTrimmer

TRIM_LENGTH - Variable in class uk.ac.sanger.npg.picard.BamReadTrimmer

TRIM_QUALITY_TAG - Variable in class uk.ac.sanger.npg.picard.BamReadTrimmer

trimSAMRecord(SAMRecord, int, int, boolean) - Method in class uk.ac.sanger.npg.picard.BamReadTrimmer