abstract class CNVDatabase extends java.lang.Object
Abstract interface that can be implemented by different CNV sources.
CNVs are operated on as gngs.Region objects, but implementations will set implementation-specific properties that can be accessed as properties directly on the class.
| Constructor and description |
|---|
CNVDatabase
() |
| Type Params | Return Type | Name and description |
|---|---|---|
|
abstract double |
maxFreq(java.util.Map options, gngs.Region region)Find the maximum frequency of this CNV within any study within the database where the study has more than a minimum threshold size (default: 10 people). |
|
abstract java.util.List<gngs.Region> |
queryOverlapping(gngs.Region r)Query for regions overlapping region r |
| Methods inherited from class | Name |
|---|---|
class java.lang.Object |
java.lang.Object#wait(long), java.lang.Object#wait(long, int), java.lang.Object#wait(), java.lang.Object#equals(java.lang.Object), java.lang.Object#toString(), java.lang.Object#hashCode(), java.lang.Object#getClass(), java.lang.Object#notify(), java.lang.Object#notifyAll() |
Find the maximum frequency of this CNV within any study within the database where the study has more than a minimum threshold size (default: 10 people).
region - region to searchQuery for regions overlapping region r The returned regions are expected to have a number of properties added as expando properties: