HtsjdkReadsRdd (Disq 0.3.8 API)

java.lang.Object
- org.disq_bio.disq.HtsjdkReadsRdd

```
public class HtsjdkReadsRdd
extends Object
```
A HtsjdkReadsRdd is the distributed equivalent of a htsjdk SamReader. It represents a SAM, BAM, or CRAM file stored in a distributed filesystem, and encapsulates a Spark RDD containing the reads in it.
Use a HtsjdkReadsRddStorage to read and write HtsjdkReadsRdds.

See Also:

HtsjdkReadsRddStorage

Constructor Summary

Constructors
Constructor Description

HtsjdkReadsRdd(htsjdk.samtools.SAMFileHeader header, org.apache.spark.api.java.JavaRDD<htsjdk.samtools.SAMRecord> reads)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`htsjdk.samtools.SAMFileHeader`	`getHeader()`
`org.apache.spark.api.java.JavaRDD<htsjdk.samtools.SAMRecord>`	`getReads()`

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

Constructor Detail

HtsjdkReadsRdd

public HtsjdkReadsRdd(htsjdk.samtools.SAMFileHeader header,
                      org.apache.spark.api.java.JavaRDD<htsjdk.samtools.SAMRecord> reads)

Method Detail
- getHeader
```
public htsjdk.samtools.SAMFileHeader getHeader()
```
  Returns:
  
  the header for the reads in this RDD. In the case that different reads have different headers, it is undefined which header this method returns.
- getReads
```
public org.apache.spark.api.java.JavaRDD<htsjdk.samtools.SAMRecord> getReads()
```
  Returns:
  
  a RDD of SAMRecord with headers.