PairedVariantSubContextIterator (picard 2.18.2 API)

java.lang.Object
- picard.vcf.PairedVariantSubContextIterator

All Implemented Interfaces:

Iterator<PairedVariantSubContextIterator.VcfTuple>
```
public class PairedVariantSubContextIterator
extends Object
implements Iterator<PairedVariantSubContextIterator.VcfTuple>
```
An iterator that takes a pair of iterators over VariantContexts and iterates over them in tandem. A tuple will be returned with variant contexts for both contexts if present. Otherwise, the missing context at that site will be empty. The contexts will be returned in coordinate order.

Nested Class Summary

Nested Classes
Modifier and Type Class Description

static class PairedVariantSubContextIterator.VcfTuple
Little class to hold a pair of VariantContexts that are in sync with one another.

Nested Classes
Modifier and Type	Class	Description
`static class`	`PairedVariantSubContextIterator.VcfTuple`	Little class to hold a pair of VariantContexts that are in sync with one another.

Constructor Summary

Constructors
Constructor	Description
`PairedVariantSubContextIterator(Iterator<htsjdk.variant.variantcontext.VariantContext> leftIterator, String leftSample, Iterator<htsjdk.variant.variantcontext.VariantContext> rightIterator, String rightSample, htsjdk.samtools.SAMSequenceDictionary dict)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type Method Description

boolean hasNext()

PairedVariantSubContextIterator.VcfTuple next()

void remove()
- Methods inherited from interface java.util.Iterator
  forEachRemaining
- Methods inherited from class java.lang.Object
  clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`boolean`	`hasNext()`
`PairedVariantSubContextIterator.VcfTuple`	`next()`
`void`	`remove()`

Constructor Detail

PairedVariantSubContextIterator

public PairedVariantSubContextIterator(Iterator<htsjdk.variant.variantcontext.VariantContext> leftIterator,
                                       String leftSample,
                                       Iterator<htsjdk.variant.variantcontext.VariantContext> rightIterator,
                                       String rightSample,
                                       htsjdk.samtools.SAMSequenceDictionary dict)

Method Detail
- hasNext
```
public boolean hasNext()
```
  Specified by:
  
  hasNext in interface Iterator<PairedVariantSubContextIterator.VcfTuple>
- next
```
public PairedVariantSubContextIterator.VcfTuple next()
```
  Specified by:
  
  next in interface Iterator<PairedVariantSubContextIterator.VcfTuple>
- remove
```
public void remove()
```
  Specified by:
  
  remove in interface Iterator<PairedVariantSubContextIterator.VcfTuple>

Class PairedVariantSubContextIterator

Nested Class Summary

Constructor Summary

Method Summary

Methods inherited from interface java.util.Iterator

Methods inherited from class java.lang.Object

Constructor Detail

PairedVariantSubContextIterator

Method Detail

hasNext

next

remove