htsjdk.samtools.cram.io (htsjdk 2.18.2 API)

Interface Summary
Interface	Description
BitInputStream	An interface to describe the requirements for reading bit data as opposed to bytes.
BitOutputStream	An interface to describe the requirements for writing out bits as opposed to bytes.

Class Summary
Class	Description
CountingInputStream	An input stream that counts the bytes read from it.
CramInt	Methods to read and write CRAM int values as given in the file format specification.
CramIntArray	Methods to read and write CRAM array of integers data type.
CRC32InputStream	An input stream that calculates CRC32 of all the bytes passed through it.
CRC32OutputStream	An output stream that calculates CRC32 checksum of all the bytes written through the stream.
DefaultBitInputStream	Must not read from delegate unless no bits left in the buffer!!!
DefaultBitOutputStream
ExposedByteArrayOutputStream
InputStreamUtils	Convenience methods to read from `InputStream`.
ITF8	Methods to read and write int values as per ITF8 specification in CRAM.
LTF8	Methods to read and write LTF8 as per CRAM specs.

Package htsjdk.samtools.cram.io