12/28/2022 0 Comments Samtools threads![]() SRAAlignmentIterator close() - Method in class. SeekableStream close() - Method in class. SeekablePathStream close() - Method in class. SeekableMemoryStream close() - Method in class. SeekableHTTPStream close() - Method in class. SeekableFTPStreamHelper close() - Method in class. SeekableFTPStream close() - Method in class. SeekableFileStream close() - Method in class. SeekableBufferedStream close() - Method in class. ByteArraySeekableStream close() - Method in class. SamReader.PrimitiveSamReaderToSamReaderAdapter close() - Method in class. SamReader.PrimitiveSamReader close() - Method in class htsjdk.samtools. SamReader.AssertingIterator close() - Method in interface htsjdk.samtools. close() - Method in class htsjdk.samtools. Must be called or else file will likely be defective. ByteArrayLenEncoding ByteArraySeekableStream - Class in CompressionHeaderFactory ByteArrayLenEncoding - Class in ByteArrayLenEncoding() - Constructor for class. CRAIEntry BYTE_SPACE_SIZE - Static variable in class. CRAIEntry byStartDesc - Static variable in class. EncodingKey byStart - Static variable in class. CRAIEntry byFirstTwoChars(String) - Static method in enum. ![]() DataWriterFactory byEnd - Static variable in class. HuffmanCode buildWriter(BitOutputStream, Map, CompressionHeader, int) - Method in class .writer. Container buildTree(int, T) - Static method in class .huffman. DataReaderFactory buildSlicesTime - Variable in class. buildReader(AbstractReader, BitInputStream, Map, CompressionHeader, int) - Method in class .reader. BlockĬreate a new slice header block with the given uncompressed content. Container buildNewCore(byte) - Static method in class. ContainerFactory buildHeaderTime - Variable in class. SubexponentialIntegerEncoding buildContainer(List) - Method in class. NullEncoding buildCodec(Map, Map) - Method in class. HuffmanIntegerEncoding buildCodec(Map, Map) - Method in class. ![]() ![]() HuffmanByteEncoding buildCodec(Map, Map) - Method in class .dec. GolombRiceIntegerEncoding buildCodec(Map, Map) - Method in class .dec. GolombLongEncoding buildCodec(Map, Map) - Method in class. GolombIntegerEncoding buildCodec(Map, Map) - Method in class. GammaIntegerEncoding buildCodec(Map, Map) - Method in class. ExternalLongEncoding buildCodec(Map, Map) - Method in class. ExternalIntegerEncoding buildCodec(Map, Map) - Method in class. ExternalByteEncoding buildCodec(Map, Map) - Method in class. ExternalByteArrayEncoding buildCodec(Map, Map) - Method in class. Encoding buildCodec(Map, Map) - Method in class. ByteArrayStopEncoding buildCodec(Map, Map) - Method in interface. ByteArrayLenEncoding buildCodec(Map, Map) - Method in class. BetaIntegerEncoding buildCodec(Map, Map) - Method in class. VCFEncoder buildCodec(Map, Map) - Method in class. buildAlleleStrings(VariantContext) - Method in class. Validate and build the VariantContextWriter. ![]()
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