picard.illumina.parser

Class Tile

java.lang.Object

picard.illumina.parser.Tile

public class Tile
extends java.lang.Object

Represents a tile from TileMetricsOut.bin. Stores information on location (lane & tile #, density, number of clusters and the phasing/prephasing values associated with this tile

Author:

jgentry

Constructor Summary

Constructors

Constructor and Description
Tile(int lane, int tile, float density, float clusters, TilePhasingValue... tilePhasingValues)

Method Summary

Modifier and Type	Method and Description
float	getClusterCount() Returns the number of on this tile.
float	getClusterDensity() Returns the cluster density of this tile, in units of [cluster/mm^2].
int	getLaneNumber() Returns the number of this tile's parent lane.
java.util.Map<TileTemplateRead,java.lang.Float>	getPhasingMap()
java.util.Map<TileTemplateRead,java.lang.Float>	getPrePhasingMap()
int	getTileNumber() Returns the number/name of this tile.

Methods inherited from class java.lang.Object

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

Constructor Detail

Tile

public Tile(int lane,
            int tile,
            float density,
            float clusters,
            TilePhasingValue... tilePhasingValues)

Parameters:

tilePhasingValues - Either one or two TilePhasingValues, corresponding to the FIRST and potentially SECOND template reads

Method Detail

getLaneNumber

public int getLaneNumber()

Returns the number of this tile's parent lane.

getTileNumber

public int getTileNumber()

Returns the number/name of this tile.

getClusterDensity

public float getClusterDensity()

Returns the cluster density of this tile, in units of [cluster/mm^2].

getClusterCount

public float getClusterCount()

Returns the number of on this tile.

getPhasingMap

public java.util.Map<TileTemplateRead,java.lang.Float> getPhasingMap()

getPrePhasingMap

public java.util.Map<TileTemplateRead,java.lang.Float> getPrePhasingMap()