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- s -
SamFile() :
SamFile
SamFileReader() :
SamFileReader
SamFileWriter() :
SamFileWriter
SamRecord() :
SamRecord
seqWithEquals() :
SamQuerySeqWithRef
seqWithoutEquals() :
SamQuerySeqWithRef
Set() :
CigarRoller
set0BasedMatePosition() :
SamRecord
set0BasedPosition() :
SamRecord
set1BasedMatePosition() :
SamRecord
set1BasedPosition() :
SamRecord
setApplication() :
GenomeSequence
setAttemptRecovery() :
InputFile
setBuffer() :
SamRecord
setBufferFromFile() :
SamRecord
setCigar() :
SamRecord
setDeletionIndel1() :
GlfRecord
setDeletionIndel2() :
GlfRecord
setFlag() :
SamRecord
setHeaderTextString() :
GlfHeader
setInsertionIndel1() :
GlfRecord
setInsertionIndel2() :
GlfRecord
setInsertSize() :
SamRecord
setLk() :
GlfRecord
setLkHet() :
GlfRecord
setLkHom1() :
GlfRecord
setLkHom2() :
GlfRecord
setMapQuality() :
SamRecord
setMateReferenceName() :
SamRecord
setMinDepth() :
GlfRecord
setMinLk() :
GlfRecord
setName() :
GlfRefSection
setOffset() :
GlfRecord
setQuality() :
SamRecord
setQueryIndex() :
SamSingleBaseMatchInfo
setReadDepth() :
GlfRecord
setReadName() :
SamRecord
SetReadSection() :
SamFile
SetReadSequenceTranslation() :
SamFile
setRecordType() :
GlfRecord
setRefBaseInt() :
GlfRecord
setReference() :
SamRecord
SetReference() :
SamFile
setReferenceName() :
GenomeSequence
,
SamRecord
setRefLen() :
GlfRefSection
setRmsMapQ() :
GlfRecord
setRtypeRef() :
GlfRecord
setSequence() :
SamRecord
setSequenceTranslation() :
SamRecord
setSortedValidation() :
SamFile
setStatus() :
GlfStatus
setType() :
SamSingleBaseMatchInfo
SetWriteSequenceTranslation() :
SamFile
shiftIndelsLeft() :
SamRecord
size() :
Cigar
softClip() :
SamFilter
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