- createRecordReader
Returns a BAMRecordReader initialized with the parameters.
- getSplits
The splits returned are FileVirtualSplit.
- addIndexedSplits
- addProbabilisticSplits
- convertSimpleIntervalToQueryInterval
Converts an interval in SimpleInterval format into an htsjdk QueryInterval. In
doing so, a header lo
- filterByInterval
- getIdxPath
- getIntervals
- isSplitable
- prepareQueryIntervals
Converts a List of SimpleIntervals into the format required by the SamReader
query API
- setTraversalParameters
Only include reads that overlap the given intervals (if specified) and unplaced
unmapped reads (if t
- <init>