TwoBitFacade (biojava 5.2.0 API)

java.lang.Object
- org.biojava.nbio.genome.parsers.twobit.TwoBitFacade

```
public class TwoBitFacade
extends Object
```
A facade that makes it easier to work with a 2bit file. Created by yana on 3/27/17.

Constructor Summary

Constructors
Constructor Description

TwoBitFacade(File file)
Reads a genome from a locally stored .2bit file.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`close()`	Closes .2bit file twoBitParser.
`String`	`getSequence(String chromosomeName, int start, int end)`	Extract a sequence from a chromosome, using chromosomal coordinates
`void`	`setChromosome(String chr)`	Sets a chromosome for TwoBitParser.

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

- Constructor Detail
  - TwoBitFacade
```
public TwoBitFacade(File file)
             throws Exception
```
    Reads a genome from a locally stored .2bit file.
    
    Parameters:
    
    file - the File to a .2bit file.
    
    Throws:
    
    Exception
- Method Detail
  - close
```
public void close()
           throws Exception
```
    Closes .2bit file twoBitParser.
    
    Throws:
    
    Exception
  - setChromosome
```
public void setChromosome(String chr)
                   throws Exception
```
    Sets a chromosome for TwoBitParser.
    
    Parameters:
    
    chr - The chromosome name (e.g. chr21)
    
    Throws:
    
    Exception
  - getSequence
```
public String getSequence(String chromosomeName,
                          int start,
                          int end)
                   throws Exception
```
    Extract a sequence from a chromosome, using chromosomal coordinates
    
    Parameters:
    
    chromosomeName -
    
    start -
    
    end -
    
    Returns:
    
    the DNASequence from the requested coordinates.
    
    Throws:
    
    Exception