org.utgenome.format.bed
Class BED2SilkReader

java.lang.Object
  java.io.Reader
      org.utgenome.format.FormatConversionReader
          org.utgenome.format.bed.BED2SilkReader

All Implemented Interfaces:

Closeable, Readable

public class BED2SilkReader
extends FormatConversionReader

BED2SilkReader read the input BED data, and the user can read it as if it were a Silk format.

Author:

leo

Nested Class Summary

Nested classes/interfaces inherited from class org.utgenome.format.FormatConversionReader

FormatConversionReader.PipeConsumer

Field Summary

Fields inherited from class java.io.Reader

lock

Constructor Summary

BED2SilkReader(Reader bedReader)

Method Summary

static BEDQuery

scan(Reader input, BEDQuery query) Read an input BED data, and retrieves BEDTrack and BEDEntry information through the BEDQuery interface.

Methods inherited from class org.utgenome.format.FormatConversionReader

close, read

Methods inherited from class java.io.Reader

mark, markSupported, read, read, read, ready, reset, skip

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

BED2SilkReader

public BED2SilkReader(Reader bedReader)
               throws IOException

Throws:

IOException

Method Detail

scan

public static BEDQuery scan(Reader input,
                            BEDQuery query)
                     throws UTGBException

Read an input BED data, and retrieves BEDTrack and BEDEntry information through the BEDQuery interface.

Parameters:

input -

query -

Returns:

Throws:

UTGBException