Package | Description |
---|---|
htsjdk.samtools.util | |
htsjdk.tribble | |
htsjdk.tribble.readers |
Modifier and Type | Class and Description |
---|---|
class |
BlockCompressedInputStream |
class |
BlockCompressedOutputStream
Writer for a file that is a series of gzip blocks (BGZF format).
|
Modifier and Type | Method and Description |
---|---|
LocationAware |
FeatureCodec.makeIndexableSourceFromStream(InputStream bufferedInputStream)
Generates a
LocationAware reader of type SOURCE . |
LocationAware |
BinaryFeatureCodec.makeIndexableSourceFromStream(InputStream bufferedInputStream)
PositionalBufferedStream is already LocationAware . |
LocationAware |
AsciiFeatureCodec.makeIndexableSourceFromStream(InputStream bufferedInputStream) |
Modifier and Type | Interface and Description |
---|---|
interface |
Positional
Minimal interface for an object at support getting the current position in the stream / writer / file, as well as a handful of other
reader-like features.
|
Modifier and Type | Class and Description |
---|---|
class |
AsciiLineReader
A simple class that provides
AsciiLineReader.readLine() functionality around a PositionalBufferedStream
BufferedReader and its BufferedReader.readLine() method should be used in preference to this class (when the
LocationAware functionality is not required) because it offers greater performance. |
class |
AsciiLineReaderIterator
A class that iterates over the lines and line positions in an
AsciiLineReader . |
class |
PositionalBufferedStream
A wrapper around an
InputStream which performs it's own buffering, and keeps track of the position. |