GenerateRForPHG

All Implemented Interfaces:
```
public class GenerateRForPHG

                    
```
This class holds methods and classes to generate R code for PHG classes. It also creates vectors that hold PHG database table information.

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description

Field Summary

Fields
Modifier and Type	Field	Description

Constructor Summary

Constructors
Constructor	Description

Enum Constant Summary

Enum Constants
Enum Constant	Description

Method Summary

Modifier and Type	Method	Description
`static void`	`main(Array<String> args)`
`static RefRangeVectors`	`graphToRefRangeVectors(HaplotypeGraph graph, Array<int> refRanges)`	Given a PHG HaplotypeGraph, create a set of vectors representing data for all ReferenceRanges in the graph.
`static HaplotypesDataVectors`	`graphToHapsInRefRangeVectors(HaplotypeGraph graph, Array<int> refRanges, boolean includeSequence, boolean includeVariants)`	Given a PHG HaplotypeGraph, create a set of vectors representing data for all Haplotypes/Nodes in the graph.
`static JsonObject`	`createVinfoObject(HaplotypeNode.VariantInfo vinfo)`

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

- Constructor Detail
- Method Detail
  - main
```
 static void main(Array<String> args)
```
  - graphToRefRangeVectors
```
 static RefRangeVectors graphToRefRangeVectors(HaplotypeGraph graph, Array<int> refRanges)
```
    Given a PHG HaplotypeGraph, create a set of vectors representing data for all ReferenceRanges in the graph. If the user passes a list of refRangeIds, then only return data for those reference ranges. If this list is null or empty, return data for all reference ranges in the graph.
    
    Parameters:
    
    refRanges - : List of reference range ids
  - graphToHapsInRefRangeVectors
```
 static HaplotypesDataVectors graphToHapsInRefRangeVectors(HaplotypeGraph graph, Array<int> refRanges, boolean includeSequence, boolean includeVariants)
```
    Given a PHG HaplotypeGraph, create a set of vectors representing data for all Haplotypes/Nodes in the graph. This assumes the graph was created with sequence and variant info if the user has these 2 parameters as "true"
    
    Parameters:
    
    refRanges - : List of reference range ids
    
    includeSequence - : boolean - only include if true
    
    includeVariants - : boolean - only include if true
  - createVinfoObject
```
 static JsonObject createVinfoObject(HaplotypeNode.VariantInfo vinfo)
```