bpp-seq
2.2.0
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This is the complete list of members for bpp::SequenceWithAnnotation, including all inherited members.
addAnnotation(SequenceAnnotation *anno) | bpp::SequenceWithAnnotation | inlinevirtual |
bpp::addElement(const std::string &c)=0 | bpp::SymbolList | pure virtual |
bpp::addElement(size_t pos, const std::string &c)=0 | bpp::SymbolList | pure virtual |
bpp::addElement(int v)=0 | bpp::SymbolList | pure virtual |
bpp::addElement(size_t pos, int v)=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::addElement(const std::string &c) | bpp::EdSymbolList | virtual |
bpp::EdSymbolList::addElement(size_t pos, const std::string &c) | bpp::EdSymbolList | virtual |
bpp::EdSymbolList::addElement(int v) | bpp::EdSymbolList | virtual |
bpp::EdSymbolList::addElement(size_t pos, int v) | bpp::EdSymbolList | virtual |
addSymbolListListener(SymbolListListener *listener) | bpp::EdSymbolList | inlinevirtual |
afterSequenceChanged(const SymbolListEditionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
afterSequenceDeleted(const SymbolListDeletionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
afterSequenceInserted(const SymbolListInsertionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
afterSequenceSubstituted(const SymbolListSubstitutionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
append(const std::vector< int > &content) | bpp::SequenceWithAnnotation | virtual |
append(const std::vector< std::string > &content) | bpp::SequenceWithAnnotation | virtual |
append(const std::string &content) | bpp::SequenceWithAnnotation | virtual |
beforeSequenceChanged(const SymbolListEditionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
beforeSequenceDeleted(const SymbolListDeletionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
beforeSequenceInserted(const SymbolListInsertionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
beforeSequenceSubstituted(const SymbolListSubstitutionEvent &event) | bpp::EdSymbolList | inlineprotectedvirtual |
clone() const | bpp::SequenceWithAnnotation | inlinevirtual |
comments_ | bpp::SequenceWithAnnotation | private |
content_ | bpp::EdSymbolList | protected |
bpp::deleteElement(size_t pos)=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::deleteElement(size_t pos) | bpp::EdSymbolList | virtual |
bpp::deleteElements(size_t pos, size_t len)=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::deleteElements(size_t pos, size_t len) | bpp::EdSymbolList | virtual |
EdSymbolList(const Alphabet *alpha) | bpp::EdSymbolList | inline |
EdSymbolList(const std::vector< std::string > &list, const Alphabet *alpha) | bpp::EdSymbolList | |
EdSymbolList(const std::vector< int > &list, const Alphabet *alpha) | bpp::EdSymbolList | |
EdSymbolList(const SymbolList &list) | bpp::EdSymbolList | |
EdSymbolList(const EdSymbolList &list) | bpp::EdSymbolList | |
fireAfterSequenceChanged(const SymbolListEditionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireAfterSequenceDeleted(const SymbolListDeletionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireAfterSequenceInserted(const SymbolListInsertionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireAfterSequenceSubstituted(const SymbolListSubstitutionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireBeforeSequenceChanged(const SymbolListEditionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireBeforeSequenceDeleted(const SymbolListDeletionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireBeforeSequenceInserted(const SymbolListInsertionEvent &event) | bpp::EdSymbolList | inlineprotected |
fireBeforeSequenceSubstituted(const SymbolListSubstitutionEvent &event) | bpp::EdSymbolList | inlineprotected |
bpp::getAlphabet() const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::getAlphabet() const | bpp::EdSymbolList | inlinevirtual |
getAnnotation(const std::string &type) const | bpp::SequenceWithAnnotation | inlinevirtual |
getAnnotation(const std::string &type) | bpp::SequenceWithAnnotation | inlinevirtual |
getAnnotationTypes() const | bpp::SequenceWithAnnotation | virtual |
bpp::getChar(size_t pos) const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::getChar(size_t pos) const | bpp::EdSymbolList | virtual |
getComments() const | bpp::SequenceWithAnnotation | inlinevirtual |
bpp::getContent() const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::getContent() const | bpp::EdSymbolList | inlinevirtual |
getListener(size_t i) const | bpp::EdSymbolList | inlinevirtual |
getListener(size_t i) | bpp::EdSymbolList | inlinevirtual |
getName() const | bpp::SequenceWithAnnotation | inlinevirtual |
getNumberOfListeners() const | bpp::EdSymbolList | inlinevirtual |
bpp::getValue(size_t pos) const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::getValue(size_t pos) const | bpp::EdSymbolList | virtual |
hasAnnotation(const std::string &type) const | bpp::SequenceWithAnnotation | inlinevirtual |
listeners_ | bpp::EdSymbolList | protected |
merge(const SequenceWithAnnotation &swa) | bpp::SequenceWithAnnotation | virtual |
name_ | bpp::SequenceWithAnnotation | private |
operator=(const Sequence &s) | bpp::SequenceWithAnnotation | |
operator=(const SequenceWithAnnotation &s) | bpp::SequenceWithAnnotation | |
bpp::EdSymbolList::operator=(const SymbolList &list) | bpp::EdSymbolList | |
bpp::EdSymbolList::operator=(const EdSymbolList &list) | bpp::EdSymbolList | |
bpp::operator[](size_t i) const =0 | bpp::SymbolList | pure virtual |
bpp::operator[](size_t i)=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::operator[](size_t i) const | bpp::EdSymbolList | inlinevirtual |
bpp::EdSymbolList::operator[](size_t i) | bpp::EdSymbolList | inlinevirtual |
propagateEvents(bool yn) | bpp::EdSymbolList | inlineprotected |
propagateEvents() const | bpp::EdSymbolList | inlineprotected |
removeSymbolListListener(SymbolListListener *listener) | bpp::EdSymbolList | inlinevirtual |
SequenceWithAnnotation(const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::string &sequence, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::string &sequence, const Comments &comments, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::vector< std::string > &sequence, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::vector< std::string > &sequence, const Comments &comments, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::vector< int > &sequence, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const std::string &name, const std::vector< int > &sequence, const Comments &comments, const Alphabet *alpha) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const Sequence &s) | bpp::SequenceWithAnnotation | |
SequenceWithAnnotation(const SequenceWithAnnotation &s) | bpp::SequenceWithAnnotation | |
setComments(const Comments &comments) | bpp::SequenceWithAnnotation | inlinevirtual |
setContent(const std::string &sequence) | bpp::SequenceWithAnnotation | virtual |
setContent(const std::vector< int > &list) | bpp::SequenceWithAnnotation | inlinevirtual |
setContent(const std::vector< std::string > &list) | bpp::SequenceWithAnnotation | inlinevirtual |
bpp::setElement(size_t pos, const std::string &c)=0 | bpp::SymbolList | pure virtual |
bpp::setElement(size_t pos, int v)=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::setElement(size_t pos, const std::string &c) | bpp::EdSymbolList | virtual |
bpp::EdSymbolList::setElement(size_t pos, int v) | bpp::EdSymbolList | virtual |
setName(const std::string &name) | bpp::SequenceWithAnnotation | inlinevirtual |
setToSizeL(size_t newSize) | bpp::SequenceWithAnnotation | virtual |
setToSizeR(size_t newSize) | bpp::SequenceWithAnnotation | virtual |
bpp::shuffle()=0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::shuffle() | bpp::EdSymbolList | inlinevirtual |
bpp::size() const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::size() const | bpp::EdSymbolList | inlinevirtual |
bpp::toString() const =0 | bpp::SymbolList | pure virtual |
bpp::EdSymbolList::toString() const | bpp::EdSymbolList | virtual |
~EdSymbolList() | bpp::EdSymbolList | inlinevirtual |
~Sequence() | bpp::Sequence | inlinevirtual |
~SequenceWithAnnotation() | bpp::SequenceWithAnnotation | inlinevirtual |
~SymbolList() | bpp::SymbolList | inlinevirtual |