Uses of Class
org.snpeff.binseq.DnaAndQualitySequence

Packages that use DnaAndQualitySequence

Package	Description
org.snpeff.binseq
org.snpeff.binseq.comparator

Uses of DnaAndQualitySequence in org.snpeff.binseq

Subclasses of DnaAndQualitySequence in org.snpeff.binseq

Modifier and Type	Class	Description
class	DnaAndQualitySequenceWithId	DnaAndQualitySequence with an ID

Methods in org.snpeff.binseq that return DnaAndQualitySequence

Modifier and Type	Method	Description
static DnaAndQualitySequence	DnaAndQualitySequence.empty()
DnaAndQualitySequence	DnaAndQualitySequence.overlap(BinarySequence sequence, int start)	Creates a new sequence by overlapping 'this' and 'sequence' E.g.
DnaAndQualitySequence	DnaAndQualitySequence.read(java.io.DataInputStream dataInStream)	Read data in binary format
DnaAndQualitySequence	DnaAndQualitySequence.reverseWc()

Uses of DnaAndQualitySequence in org.snpeff.binseq.comparator

Methods in org.snpeff.binseq.comparator with parameters of type DnaAndQualitySequence

Modifier and Type	Method	Description
int	DnaQualSubsequenceComparator.compare(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
int	DnaQualSubsequenceComparator.score(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)