htsjdk.tribble

Interface FeatureReader<T extends Feature>

Type Parameters:

T - a feature type

All Superinterfaces:

java.lang.AutoCloseable, java.io.Closeable

All Known Implementing Classes:

AbstractFeatureReader, TabixFeatureReader, TribbleIndexedFeatureReader

public interface FeatureReader<T extends Feature>
extends java.io.Closeable

the basic interface that feature sources need to match

Method Summary

Modifier and Type	Method and Description
void	close()
java.lang.Object	getHeader()
java.util.List<java.lang.String>	getSequenceNames()
CloseableTribbleIterator<T>	iterator()
CloseableTribbleIterator<T>	query(java.lang.String chr, int start, int end)

Method Detail

query

CloseableTribbleIterator<T> query(java.lang.String chr,
                                  int start,
                                  int end)
                           throws java.io.IOException

Throws:

java.io.IOException

iterator

CloseableTribbleIterator<T> iterator()
                              throws java.io.IOException

Throws:

java.io.IOException

close

void close()
    throws java.io.IOException

Specified by:

close in interface java.lang.AutoCloseable

Specified by:

close in interface java.io.Closeable

Throws:

java.io.IOException

getSequenceNames

java.util.List<java.lang.String> getSequenceNames()

getHeader

java.lang.Object getHeader()