public class PhysicalLocation extends Object
Modifier and Type | Field and Description |
---|---|
static String |
DEFAULT_READ_NAME_REGEX |
Constructor and Description |
---|
PhysicalLocation() |
PhysicalLocation(String readNameRegExp) |
Modifier and Type | Method and Description |
---|---|
boolean |
addLocationInformation(String readName,
PhysicalLocation loc)
Method used to extract tile/x/y from the read name and add it to the PhysicalLocation so that it
can be used later to determine optical duplication
|
short |
getTile() |
int |
getX() |
int |
getY() |
void |
setTile(short tile) |
void |
setX(int x) |
void |
setY(int y) |
public static final String DEFAULT_READ_NAME_REGEX
public PhysicalLocation()
public PhysicalLocation(String readNameRegExp)
public short getTile()
public void setTile(short tile)
public int getX()
public void setX(int x)
public int getY()
public void setY(int y)
public boolean addLocationInformation(String readName, PhysicalLocation loc)
readName
- the name of the read/clusterloc
- the object to add tile/x/y to