libStatGen Software
1
- s -
SamCoordOutput() :
SamCoordOutput
SamFile() :
SamFile
SamFileHeader() :
SamFileHeader
SamFileReader() :
SamFileReader
SamFileWriter() :
SamFileWriter
SamHeaderRecord() :
SamHeaderRecord
SamRecord() :
SamRecord
SamRecordPool() :
SamRecordPool
SamReferenceInfo() :
SamReferenceInfo
SamValidationError() :
SamValidationError
SamValidationErrors() :
SamValidationErrors
seqWithEquals() :
SamQuerySeqWithRef
seqWithoutEquals() :
SamQuerySeqWithRef
Set() :
CigarRoller
set0BasedMatePosition() :
SamRecord
set0BasedPosition() :
SamRecord
set1BasedMatePosition() :
SamRecord
set1BasedPosition() :
SamRecord
setApplication() :
GenomeSequence
setAttemptRecovery() :
InputFile
setBaseMapType() :
BaseAsciiMap
,
BaseComposition
setBuffer() :
SamRecord
setBufferFromFile() :
SamRecord
setCigar() :
SamRecord
setDeletionIndel1() :
GlfRecord
setDeletionIndel2() :
GlfRecord
setDuplicate() :
SamFlag
setFields() :
SamHeaderRecord
setFlag() :
SamRecord
setHandlingType() :
StatGenStatus
setHDTag() :
SamFileHeader
setHeaderTextString() :
GlfHeader
setInsertionIndel1() :
GlfRecord
setInsertionIndel2() :
GlfRecord
setInsertSize() :
SamRecord
setLk() :
GlfRecord
setLkHet() :
GlfRecord
setLkHom1() :
GlfRecord
setLkHom2() :
GlfRecord
setMapQuality() :
SamRecord
setMateReferenceName() :
SamRecord
setMaxAllocatedRecs() :
SamRecordPool
setMaxErrors() :
FastQFile
setMinDepth() :
GlfRecord
setMinLk() :
GlfRecord
setName() :
GlfRefSection
setNotDuplicate() :
SamFlag
setNumPrimerBases() :
BaseAsciiMap
setOffset() :
GlfRecord
setOutputFile() :
SamCoordOutput
setPGTag() :
SamFileHeader
setProgressStream() :
GenomeSequence
setQuality() :
SamRecord
setQueryIndex() :
SamSingleBaseMatchInfo
setReadDepth() :
GlfRecord
SetReadFlags() :
SamFile
setReadName() :
SamRecord
SetReadSection() :
SamFile
SetReadSequenceTranslation() :
SamFile
setRecordType() :
GlfRecord
setRefBaseInt() :
GlfRecord
setReference() :
PileupElement
SetReference() :
SamFile
setReference() :
SamRecord
setReferenceName() :
GenomeSequence
,
SamRecord
setRefLen() :
GlfRefSection
setRGTag() :
SamFileHeader
setRmsMapQ() :
GlfRecord
setRtypeRef() :
GlfRecord
setSequence() :
SamRecord
setSequenceTranslation() :
SamRecord
setSortedValidation() :
SamFile
setSQTag() :
SamFileHeader
setStatus() :
GlfStatus
,
StatGenStatus
setTag() :
SamHeaderRecord
setType() :
SamSingleBaseMatchInfo
setUnmapped() :
SamFlag
SetWriteSequenceTranslation() :
SamFile
shiftIndelsLeft() :
SamRecord
size() :
Cigar
,
ReusableVector< DATA_TYPE >
softClip() :
SamFilter
softClipBeginByRefPos() :
CigarHelper
softClipEndByRefPos() :
CigarHelper
StatGenStatus() :
StatGenStatus
sumMismatchQuality() :
SamFilter
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