ChromosomeBand (SMRT View)

java.lang.Object
- com.pacbio.secondary.vis.data.chromosomeband.ChromosomeBand

```
public class ChromosomeBand
extends java.lang.Object
```
Encapsulates a chromosomal Band identifier (e.g. 1p36.33b).

Field Summary

Fields
Modifier and Type	Field and Description
`byte`	`arm`
`static byte`	`ARM_BOTH` Arm
`static byte`	`ARM_P` Arm
`static byte`	`ARM_Q` Arm
`short`	`band`
`int`	`chromosome`
`byte`	`density`
`static byte`	`DENSITY_ACEN` Types
`static byte`	`DENSITY_C1` Types
`static byte`	`DENSITY_C10` Types
`static byte`	`DENSITY_C11` Types
`static byte`	`DENSITY_C12` Types
`static byte`	`DENSITY_C13` Types
`static byte`	`DENSITY_C14` Types
`static byte`	`DENSITY_C15` Types
`static byte`	`DENSITY_C16` Types
`static byte`	`DENSITY_C17` Types
`static byte`	`DENSITY_C18` Types
`static byte`	`DENSITY_C19` Types
`static byte`	`DENSITY_C2` Types
`static byte`	`DENSITY_C20` Types
`static byte`	`DENSITY_C3` Types
`static byte`	`DENSITY_C4` Types
`static byte`	`DENSITY_C5` Types
`static byte`	`DENSITY_C6` Types
`static byte`	`DENSITY_C7` Types
`static byte`	`DENSITY_C8` Types
`static byte`	`DENSITY_C9` Types
`static byte`	`DENSITY_FIRST` Types
`static byte`	`DENSITY_GNEG` Types
`static byte`	`DENSITY_GPOS` Types
`static byte`	`DENSITY_GVAR` Types
`static byte`	`DENSITY_LAST` Types
`static byte`	`DENSITY_STALK` Types
`static byte`	`DENSITY_UNKNOWN` Types
`short`	`subband`
`byte`	`subsubband`

Constructor Summary

Constructors
Constructor and Description

ChromosomeBand()

ChromosomeBand(java.lang.String name)

Constructors
Constructor and Description
`ChromosomeBand()`
`ChromosomeBand(java.lang.String name)`

Method Summary

Methods
Modifier and Type	Method and Description
`java.lang.String`	`getChromosome()`
`java.lang.String`	`getName()`
`byte`	`getResolution()` The resolution of the Band specification.
`void`	`setArm(java.lang.String str)`
`void`	`setBand(java.lang.String str)`
`void`	`setChromosome(java.lang.String chr, int num_chromosomes)`
`void`	`setDensity(java.lang.String str)`
`void`	`setSubBand(java.lang.String str)`
`void`	`setSubSubBand(char c)`
`java.lang.String`	`toString()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

- Field Detail
  - chromosome
```
public int chromosome
```
  - arm
```
public byte arm
```
  - band
```
public short band
```
  - subband
```
public short subband
```
  - subsubband
```
public byte subsubband
```
  - density
```
public byte density
```
  - ARM_BOTH
```
public static final byte ARM_BOTH
```
    Arm
    
    See Also:
    Constant Field Values
  - ARM_P
```
public static final byte ARM_P
```
    Arm
    
    See Also:
    Constant Field Values
  - ARM_Q
```
public static final byte ARM_Q
```
    Arm
    
    See Also:
    Constant Field Values
  - DENSITY_UNKNOWN
```
public static final byte DENSITY_UNKNOWN
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_GNEG
```
public static final byte DENSITY_GNEG
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_GPOS
```
public static final byte DENSITY_GPOS
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_ACEN
```
public static final byte DENSITY_ACEN
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_GVAR
```
public static final byte DENSITY_GVAR
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_STALK
```
public static final byte DENSITY_STALK
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C1
```
public static final byte DENSITY_C1
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C2
```
public static final byte DENSITY_C2
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C3
```
public static final byte DENSITY_C3
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C4
```
public static final byte DENSITY_C4
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C5
```
public static final byte DENSITY_C5
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C6
```
public static final byte DENSITY_C6
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C7
```
public static final byte DENSITY_C7
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C8
```
public static final byte DENSITY_C8
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C9
```
public static final byte DENSITY_C9
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C10
```
public static final byte DENSITY_C10
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C11
```
public static final byte DENSITY_C11
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C12
```
public static final byte DENSITY_C12
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C13
```
public static final byte DENSITY_C13
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C14
```
public static final byte DENSITY_C14
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C15
```
public static final byte DENSITY_C15
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C16
```
public static final byte DENSITY_C16
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C17
```
public static final byte DENSITY_C17
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C18
```
public static final byte DENSITY_C18
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C19
```
public static final byte DENSITY_C19
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_C20
```
public static final byte DENSITY_C20
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_FIRST
```
public static final byte DENSITY_FIRST
```
    Types
    
    See Also:
    Constant Field Values
  - DENSITY_LAST
```
public static final byte DENSITY_LAST
```
    Types
    
    See Also:
    Constant Field Values
- Constructor Detail
  - ChromosomeBand
```
public ChromosomeBand()
```
  - ChromosomeBand
```
public ChromosomeBand(java.lang.String name)
```
    Parameters:
    name -
- Method Detail
  - getResolution
```
public byte getResolution()
```
    The resolution of the Band specification. "1" resolution = 0 // the whole chromosom "1p" resolution = 1 // the whole arm "1p22" resolution = 2 // band "1p22.3" resolution = 3 // subband "Yq12a" "1p22.3e" resolution = 4 // subsubband
  - setChromosome
```
public void setChromosome(java.lang.String chr,
                 int num_chromosomes)
                   throws java.lang.IllegalArgumentException
```
    Parameters:
    chr -
    num_chromosomes -
    
    Throws:
    
    java.lang.IllegalArgumentException
  - setArm
```
public void setArm(java.lang.String str)
            throws java.lang.IllegalArgumentException
```
    Parameters:
    str -
    
    Throws:
    
    java.lang.IllegalArgumentException
  - setBand
```
public void setBand(java.lang.String str)
```
    Parameters:
    str -
  - setSubBand
```
public void setSubBand(java.lang.String str)
```
    Parameters:
    str -
  - setSubSubBand
```
public void setSubSubBand(char c)
                   throws java.lang.IllegalArgumentException
```
    Parameters:
    c -
    
    Throws:
    
    java.lang.IllegalArgumentException
  - setDensity
```
public void setDensity(java.lang.String str)
```
    Parameters:
    str -
  - getChromosome
```
public java.lang.String getChromosome()
```
  - getName
```
public java.lang.String getName()
```
  - toString
```
public java.lang.String toString()
```
    Overrides:
    
    toString in class java.lang.Object

Class ChromosomeBand

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

chromosome

arm

band

subband

subsubband

density

ARM_BOTH

ARM_P

ARM_Q

DENSITY_UNKNOWN

DENSITY_GNEG

DENSITY_GPOS

DENSITY_ACEN

DENSITY_GVAR

DENSITY_STALK

DENSITY_C1

DENSITY_C2

DENSITY_C3

DENSITY_C4

DENSITY_C5

DENSITY_C6

DENSITY_C7

DENSITY_C8

DENSITY_C9

DENSITY_C10

DENSITY_C11

DENSITY_C12

DENSITY_C13

DENSITY_C14

DENSITY_C15

DENSITY_C16

DENSITY_C17

DENSITY_C18

DENSITY_C19

DENSITY_C20

DENSITY_FIRST

DENSITY_LAST

Constructor Detail

ChromosomeBand

ChromosomeBand

Method Detail

getResolution

setChromosome

setArm

setBand

setSubBand

setSubSubBand

setDensity

getChromosome

getName

toString