Creates an empty grouping.

Creates a grouping object from a set of currently ungrouped ISequenceRange objects.

An enumeration of all the SequenceRange IDs contained in this grouping.

Gets sequence range from all the groups

Adds a SequenceRange to the grouping, creating a new bucket if the ID of the range has not yet been added to the grouping or adding to an existing bucket if it has.

Determines whether the specified object is equal to the current object.

Allows an object to try to free resources and perform other cleanup operations before it is reclaimed by garbage collection.

Ungroups each of the ISequenceRanges and places them into a flat list of every ISequenceRange stored across each of the groups in this grouping. The resulting list will still be ordered in such a way that each item of a particular group will be enumerated before starting the enumeration of items from another group.

Returns a list of SequenceRange objects each of which has the ID specified in the rangeID parameter.

Serves as the default hash function.

Gets the Type of the current instance.

Returns overlapping sequence ranges from this and specified SequenceRangeGroup for each group in this grouping. For instance if you had in group 'Chr1' the following ranges: Ranges in this instance Ranges in the query 0 to 10 20 to 40 30 to 50 70 to 100 60 to 80 400 to 800 300 to 500 850 to 900 600 to 700 900 to 1200 800 to 1000 Result for minOverlap set to 1 1. If outputType is OverlappingPiecesOfIntervals. 30 to 40 70 to 80 400 to 500 600 o 700 850 to 900 900 to 1000 2. If outputType is OverlappingIntervals 30 to 50 60 to 80 300 to 500 600 to 700 800 to 1000 Running this method creates all new ISequenceRange objects and adds them to the newly created SequenceRangeGrouping returned here.

Creates a shallow copy of the current Object.

For each group in the grouping, this method traverses through each range in the group and normalizes the ranges down to the minimal spanning set required to still show the same range spans. For instance if you had in group 'Chr1' the following ranges: -> 10 to 100 -> 200 to 250 -> 35 to 45 -> 90 to 150 The result of MergeOverlaps would reduce the ranges in the 'Chr1' group to: For minOverlap = 0 -> 10 to 150 -> 200 to 250 for minOverlap = -50 -> 10 to 250 Running this method creates all new ISequenceRange objects and adds them to the newly created SequenceRangeGrouping returned here.

Merges query sequence ranges with this sequence ranges. For example, Ranges in this instance Ranges in the query 3 to 15 4 to 10 5 to 18 11 to 20 Result for minOverlap set to 1 3 to 20 Running this method creates all new ISequenceRange objects and adds them to the newly created SequenceRangeGrouping returned here.

Subtracts the query SequenceRangeGrouping from this SequenceRangeGrouping. For example, Ranges in this instance Ranges in the query 1 to 4 2 to 6 4 to 8 3 to 6 8 to 12 9 to 14 25 to 35 Result for minOverlap set to 1 1. If outputType is IntervalsWithNoOverlap 25 to 35 2. If outputType is NonOverlappingPiecesOfIntervals 1 to 2 6 to 8 8 to 9 25 to 35 Running this method creates all new ISequenceRange objects and adds them to the newly created SequenceRangeGrouping returned here.

Converts sequence range from all the groups to string.