org.utgenome.format.bed
Class BEDDatabase

java.lang.Object
  org.utgenome.format.bed.BEDDatabase

public class BEDDatabase
extends Object

Query/Update interface for BED database stored in SQLite

Author:

leo

Nested Class Summary

static class	BEDDatabase.BEDRangeQuery
static class	BEDDatabase.DBBuilder

Constructor Summary

BEDDatabase()

Method Summary

static List<GenomeRange>	overlapQuery(File bedPath, ChrLoc location)
static void	toSQLiteDB(Reader bedInput, String dbName)

Methods inherited from class java.lang.Object

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

Constructor Detail

BEDDatabase

public BEDDatabase()

Method Detail

toSQLiteDB

public static void toSQLiteDB(Reader bedInput,
                              String dbName)
                       throws IOException,
                              org.xerial.core.XerialException

Throws:

IOException

org.xerial.core.XerialException

overlapQuery

public static List<GenomeRange> overlapQuery(File bedPath,
                                             ChrLoc location)
                                      throws UTGBException

Throws:

UTGBException