- createArtificialRead
Create an artificial read with the following default parameters : header:
numberOfChromosomes = 1 st
- createArtificialSamHeader
Creates an artificial sam header, matching the parameters,
- createPair
- createReadIterator
Create an iterator containing the specified reads
- createStackOfIdenticalArtificialReads
Create a collection of identical artificial reads based on the parameters. The
cigar string for each
- createDefaultReadGroup
setup a default read group for a SAMFileHeader
- createEnumeratedReadGroups
setup read groups for the specified read groups and sample names
- createReadBackedPileup
Creates a read backed pileup containing up to pileupSize reads at refID 0 from
header at loc with re
- mappedAndUnmappedReadIterator
create an iterator containing the specified read piles
- mappedReadIterator
create an iterator containing the specified read piles
- queryReadIterator
create an ArtificialSAMQueryIterator containing the specified read piles