AbstractSequenceContainer(const Alphabet *alpha) | bpp::AbstractSequenceContainer | |
AbstractSequenceContainer(const AbstractSequenceContainer &sc) | bpp::AbstractSequenceContainer | |
AbstractSequenceContainer(const SequenceContainer &sc) | bpp::AbstractSequenceContainer | |
AbstractValuesContainer(const Alphabet *alpha) | bpp::AbstractValuesContainer | |
AbstractValuesContainer(const Comments &comments, const Alphabet *alpha) | bpp::AbstractValuesContainer | |
AbstractValuesContainer(const AbstractValuesContainer &sc) | bpp::AbstractValuesContainer | |
addObject(std::shared_ptr< Site > object, size_t objectIndex, bool checkPosition=false) | bpp::VectorSiteContainer | |
addObject(std::shared_ptr< T > object, size_t objectIndex, bool checkPosition=false) | bpp::VectorSiteContainer | virtual |
addObject(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name, bool check=false) | bpp::VectorSiteContainer | |
addObject(std::shared_ptr< T > object, size_t objectIndex, const std::string &name, bool check=false)=0 | bpp::VectorSiteContainer | pure virtual |
addObject(std::shared_ptr< T > object, const std::string &name, bool checkName=false) | bpp::VectorSiteContainer | virtual |
addObject(std::shared_ptr< T > object, const std::string &name, bool checkName=false) | bpp::VectorSiteContainer | virtual |
addObject(std::shared_ptr< T > object, size_t objectIndex, bool checkPosition=false) | bpp::VectorSiteContainer | virtual |
VectorPositionedContainer< Site >::addObject(std::shared_ptr< Site > object, size_t objectIndex, bool checkPosition=false) | VectorPositionedContainer< Site > | |
VectorMappedContainer< Sequence >::addObject(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name, bool check=false) | VectorMappedContainer< Sequence > | |
addObject_(std::shared_ptr< Site > object, size_t objectIndex, bool checkPosition=false) const | bpp::VectorSiteContainer | protected |
addObject_(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name, bool check=false) const | bpp::VectorSiteContainer | protected |
addObject_(std::shared_ptr< T > object, const std::string &name, bool checkName=false) const | bpp::VectorSiteContainer | protected |
addObject_(std::shared_ptr< T > object, size_t objectIndex, bool checkPosition=false) const | bpp::VectorSiteContainer | protected |
VectorPositionedContainer< Site >::addObject_(std::shared_ptr< Site > object, size_t objectIndex, bool checkPosition=false) const | VectorPositionedContainer< Site > | protected |
VectorMappedContainer< Sequence >::addObject_(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name, bool check=false) const | VectorMappedContainer< Sequence > | protected |
addSequence(const Sequence &sequence, bool checkName=true) | bpp::PolymorphismSequenceContainer | inlinevirtual |
addSequence(const Sequence &sequence, size_t sequenceIndex, bool checkName=true) | bpp::PolymorphismSequenceContainer | inline |
addSequenceWithFrequency(const Sequence &sequence, unsigned int frequency, bool checkName=true) | bpp::PolymorphismSequenceContainer | |
addSequenceWithFrequency(const Sequence &sequence, size_t sequenceIndex, unsigned int frequency, bool checkName=true) | bpp::PolymorphismSequenceContainer | |
addSite(const Site &site, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, int position, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, size_t siteIndex, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, size_t siteIndex, int position, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, int position, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, size_t siteIndex, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
addSite(const Site &site, size_t siteIndex, int position, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
AlignedValuesContainer() | bpp::AlignedValuesContainer | |
alphabet_ | bpp::VectorSiteContainer | protected |
appendObject(std::shared_ptr< Site > object) | bpp::VectorSiteContainer | |
appendObject(std::shared_ptr< T > object) | bpp::VectorSiteContainer | virtual |
appendObject(std::shared_ptr< Sequence > object, const std::string &name, bool check=true) | bpp::VectorSiteContainer | |
appendObject(std::shared_ptr< T > object) | bpp::VectorSiteContainer | virtual |
VectorPositionedContainer< Site >::appendObject(std::shared_ptr< Site > object) | VectorPositionedContainer< Site > | |
VectorMappedContainer< Sequence >::appendObject(std::shared_ptr< Sequence > object, const std::string &name, bool check=true) | VectorMappedContainer< Sequence > | |
changeName(const std::string &okey, const std::string &nkey) | bpp::VectorSiteContainer | |
clear() | bpp::PolymorphismSequenceContainer | virtual |
clearComments() | bpp::VectorSiteContainer | |
clone() const | bpp::PolymorphismSequenceContainer | inlinevirtual |
Commentable() | bpp::Commentable | |
Commentable(const Comments &comments) | bpp::Commentable | |
Commentable(const Commentable &com) | bpp::Commentable | |
comments_ | bpp::VectorSiteContainer | protected |
count_ | bpp::PolymorphismSequenceContainer | private |
createEmptyContainer() const | bpp::VectorSiteContainer | virtual |
createEmptyContainer() const | bpp::VectorSiteContainer | virtual |
decrementSequenceCount(size_t index) | bpp::PolymorphismSequenceContainer | |
decrementSequenceCount(const std::string &name) | bpp::PolymorphismSequenceContainer | |
deleteGeneralComments()=0 | bpp::VectorSiteContainer | pure virtual |
deleteGeneralComments() | bpp::VectorSiteContainer | virtual |
deleteGeneralComments() | bpp::VectorSiteContainer | virtual |
deleteObject(size_t objectIndex) | bpp::VectorSiteContainer | |
deleteObject(const std::string &name) | bpp::VectorSiteContainer | virtual |
deleteObject(size_t objectIndex) | bpp::VectorSiteContainer | |
deleteObjects(size_t objectIndex, size_t length) | bpp::VectorSiteContainer | |
deleteObjects(size_t objectIndex, size_t length) | bpp::VectorSiteContainer | |
deleteSequence(size_t index) | bpp::PolymorphismSequenceContainer | |
deleteSequence(const std::string &name) | bpp::PolymorphismSequenceContainer | |
deleteSite(size_t siteIndex) | bpp::VectorSiteContainer | virtual |
deleteSite(size_t siteIndex) | bpp::VectorSiteContainer | virtual |
deleteSites(size_t siteIndex, size_t length) | bpp::VectorSiteContainer | virtual |
deleteSites(size_t siteIndex, size_t length) | bpp::VectorSiteContainer | virtual |
getAllGroupsIds() const | bpp::PolymorphismSequenceContainer | |
getAlphabet() const=0 | bpp::VectorSiteContainer | pure virtual |
getAlphabet() const | bpp::VectorSiteContainer | virtual |
getAlphabet() const | bpp::VectorSiteContainer | virtual |
getComments(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getComments() const | bpp::VectorSiteContainer | |
getComments(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getComments(size_t sequenceIndex) const =0 | bpp::VectorSiteContainer | virtual |
getComments(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getComments(size_t sequenceIndex) const =0 | bpp::VectorSiteContainer | virtual |
getGeneralComments() const=0 | bpp::VectorSiteContainer | pure virtual |
getGeneralComments() const | bpp::VectorSiteContainer | virtual |
getGeneralComments() const | bpp::VectorSiteContainer | virtual |
getGroupId(size_t index) const | bpp::PolymorphismSequenceContainer | |
getGroupId(const std::string &name) const | bpp::PolymorphismSequenceContainer | |
getName(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getName(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getNumberOfGroups() const | bpp::PolymorphismSequenceContainer | |
getNumberOfObjects() const | bpp::VectorSiteContainer | |
getNumberOfSequences() const | bpp::VectorSiteContainer | virtual |
getNumberOfSequences() const | bpp::VectorSiteContainer | virtual |
getNumberOfSites() const | bpp::VectorSiteContainer | virtual |
getNumberOfSites() const | bpp::VectorSiteContainer | virtual |
getObject(size_t objectIndex) const | bpp::VectorSiteContainer | virtual |
getObject(size_t objectIndex) | bpp::VectorSiteContainer | virtual |
getObject(size_t objectIndex) const | bpp::VectorSiteContainer | virtual |
getObject(size_t objectIndex) | bpp::VectorSiteContainer | virtual |
getObject(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getObject(const std::string &name) | bpp::VectorSiteContainer | virtual |
getObject_(size_t objectIndex) const | bpp::VectorSiteContainer | protected |
getObject_(size_t objectIndex) const | bpp::VectorSiteContainer | protected |
getObjectName(size_t objectIndex) const | bpp::VectorSiteContainer | virtual |
getObjectPosition(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getObjectsNames() const | bpp::VectorSiteContainer | virtual |
getSequence(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getSequence(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getSequence(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
getSequence(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getSequenceCount(size_t index) const | bpp::PolymorphismSequenceContainer | |
getSequenceCount(const std::string &name) const | bpp::PolymorphismSequenceContainer | |
getSequencePosition(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getSequencePosition(const std::string &name) const | bpp::VectorSiteContainer | virtual |
getSequencesNames() const | bpp::VectorSiteContainer | virtual |
getSequencesNames() const | bpp::VectorSiteContainer | virtual |
getSite(size_t siteIndex) const | bpp::VectorSiteContainer | virtual |
getSite(size_t siteIndex) | bpp::VectorSiteContainer | virtual |
getSite(size_t siteIndex) const | bpp::VectorSiteContainer | virtual |
getSite(size_t siteIndex) | bpp::VectorSiteContainer | virtual |
getSitePositions() const | bpp::VectorSiteContainer | virtual |
getSitePositions() const | bpp::VectorSiteContainer | virtual |
getSize() const | bpp::VectorSiteContainer | virtual |
getSize() const | bpp::VectorSiteContainer | virtual |
getStateValueAt(size_t siteIndex, const std::string &sequenceName, int state) const =0 | bpp::VectorSiteContainer | virtual |
getStateValueAt(size_t siteIndex, const std::string &sequenceName, int state) const | bpp::VectorSiteContainer | virtual |
getStateValueAt(size_t siteIndex, size_t sequenceIndex, int state) const | bpp::VectorSiteContainer | virtual |
getStateValueAt(size_t siteIndex, const std::string &sequenceName, int state) const | bpp::VectorSiteContainer | virtual |
getStateValueAt(size_t siteIndex, size_t sequenceIndex, int state) const | bpp::VectorSiteContainer | virtual |
getSymbolListSite(size_t siteIndex) const | bpp::VectorSiteContainer | virtual |
getSymbolListSite(size_t siteIndex) | bpp::VectorSiteContainer | virtual |
group_ | bpp::PolymorphismSequenceContainer | private |
hasObject(const std::string &name) const | bpp::VectorSiteContainer | virtual |
hasOutgroup() const | bpp::PolymorphismSequenceContainer | |
hasSequence(const std::string &name) const | bpp::VectorSiteContainer | virtual |
hasSequence(const std::string &name) const | bpp::VectorSiteContainer | virtual |
incrementSequenceCount(size_t index) | bpp::PolymorphismSequenceContainer | |
incrementSequenceCount(const std::string &name) | bpp::PolymorphismSequenceContainer | |
ingroup_ | bpp::PolymorphismSequenceContainer | private |
insertObject(std::shared_ptr< Site > object, size_t objectIndex) | bpp::VectorSiteContainer | |
insertObject(std::shared_ptr< T > object, size_t objectIndex) | bpp::VectorSiteContainer | virtual |
insertObject(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name) | bpp::VectorSiteContainer | |
insertObject(std::shared_ptr< T > object, size_t objectIndex, const std::string &name)=0 | bpp::VectorSiteContainer | pure virtual |
insertObject(std::shared_ptr< T > object, size_t objectIndex) | bpp::VectorSiteContainer | virtual |
VectorPositionedContainer< Site >::insertObject(std::shared_ptr< Site > object, size_t objectIndex) | VectorPositionedContainer< Site > | |
VectorMappedContainer< Sequence >::insertObject(std::shared_ptr< Sequence > object, size_t objectIndex, const std::string &name) | VectorMappedContainer< Sequence > | |
isAvailablePosition(size_t objectIndex) const | bpp::VectorSiteContainer | |
isAvailablePosition(size_t objectIndex) const | bpp::VectorSiteContainer | |
isIngroupMember(size_t index) const | bpp::PolymorphismSequenceContainer | |
isIngroupMember(const std::string &name) const | bpp::PolymorphismSequenceContainer | |
MappedNamedContainer() | bpp::MappedNamedContainer< class > | |
MappedNamedContainer(const std::map< std::string, std::shared_ptr< T > > &ms) | bpp::MappedNamedContainer< class > | |
MappedNamedContainer(const MappedNamedContainer &msc) | bpp::MappedNamedContainer< class > | |
mNames_ | bpp::VectorSiteContainer | private |
mObjects_ | bpp::VectorSiteContainer | private |
NamedContainer() | bpp::NamedContainer< class > | private |
operator()(const std::string &sequenceName, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
operator()(const std::string &sequenceName, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
operator()(size_t sequenceIndex, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
operator()(size_t sequenceIndex, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
operator()(size_t siteIndex, const std::string &sequenceName, int state) const | bpp::VectorSiteContainer | virtual |
operator()(size_t siteIndex, size_t sequenceIndex, int state) const | bpp::VectorSiteContainer | virtual |
operator()(const std::string &sequenceName, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
operator()(const std::string &sequenceName, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
operator()(size_t sequenceIndex, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
operator()(size_t sequenceIndex, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
operator()(size_t siteIndex, const std::string &sequenceName, int state) const | bpp::VectorSiteContainer | virtual |
operator()(size_t siteIndex, size_t sequenceIndex, int state) const | bpp::VectorSiteContainer | virtual |
operator=(const PolymorphismSequenceContainer &psc) | bpp::PolymorphismSequenceContainer | |
bpp::VectorSiteContainer::operator=(const VectorSiteContainer &vsc) | bpp::VectorSiteContainer | |
bpp::VectorSiteContainer::operator=(const SiteContainer &sc) | bpp::VectorSiteContainer | |
bpp::VectorSiteContainer::operator=(const OrderedSequenceContainer &osc) | bpp::VectorSiteContainer | |
bpp::VectorSiteContainer::operator=(const SequenceContainer &sc) | bpp::VectorSiteContainer | |
bpp::AbstractSequenceContainer::operator=(const AbstractSequenceContainer &sc) | bpp::AbstractSequenceContainer | |
bpp::AbstractValuesContainer::operator=(const AbstractValuesContainer &sc) | bpp::AbstractValuesContainer | |
bpp::Commentable::operator=(const Commentable &com) | bpp::Commentable | |
bpp::VectorPositionedContainer< Site >::operator=(const VectorPositionedContainer< Site > &vsc) | VectorPositionedContainer< Site > | |
VectorMappedContainer< Sequence >::operator=(const VectorMappedContainer &vsc) | VectorMappedContainer< Sequence > | |
bpp::MappedNamedContainer::operator=(const MappedNamedContainer &msc) | bpp::MappedNamedContainer< class > | |
bpp::VectorPositionedContainer::operator=(const VectorPositionedContainer< T > &vsc) | bpp::VectorPositionedContainer< class > | |
OrderedSequenceContainer() | bpp::OrderedSequenceContainer | |
OrderedValuesContainer() | bpp::OrderedValuesContainer | |
PolymorphismSequenceContainer(const Alphabet *alpha) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(size_t size, const Alphabet *alpha) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const std::vector< std::string > &names, const Alphabet *alpha) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const OrderedSequenceContainer &sc) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const OrderedSequenceContainer &sc, bool count) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const SiteContainer &sc) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const SiteContainer &sc, bool count) | bpp::PolymorphismSequenceContainer | |
PolymorphismSequenceContainer(const PolymorphismSequenceContainer &psc) | bpp::PolymorphismSequenceContainer | |
PositionedContainer() | bpp::PositionedContainer< class > | |
positions_ | bpp::VectorSiteContainer | protected |
positions_ | bpp::VectorSiteContainer | protected |
realloc(size_t n) | bpp::VectorSiteContainer | protected |
reindexSites() | bpp::VectorSiteContainer | virtual |
reindexSites() | bpp::VectorSiteContainer | virtual |
removeObject(size_t objectIndex) | bpp::VectorSiteContainer | virtual |
removeObject(size_t objectIndex) | bpp::VectorSiteContainer | virtual |
removeObject(const std::string &name) | bpp::VectorSiteContainer | virtual |
removeSequence(size_t index) | bpp::PolymorphismSequenceContainer | virtual |
removeSequence(const std::string &name) | bpp::PolymorphismSequenceContainer | virtual |
SequenceContainer() | bpp::SequenceContainer | |
SequencedValuesContainer() | bpp::SequencedValuesContainer | |
setAsIngroupMember(size_t index) | bpp::PolymorphismSequenceContainer | |
setAsIngroupMember(const std::string &name) | bpp::PolymorphismSequenceContainer | |
setAsOutgroupMember(size_t index) | bpp::PolymorphismSequenceContainer | |
setAsOutgroupMember(const std::string &name) | bpp::PolymorphismSequenceContainer | |
setComments(const std::string &name, const Comments &comments) | bpp::VectorSiteContainer | virtual |
setComments(const Comments &comments) | bpp::VectorSiteContainer | |
setComments(size_t sequenceIndex, const Comments &comments) | bpp::VectorSiteContainer | virtual |
setComments(const std::string &name, const Comments &comments)=0 | bpp::VectorSiteContainer | virtual |
setComments(size_t sequenceIndex, const Comments &comments)=0 | bpp::VectorSiteContainer | virtual |
setComments(size_t sequenceIndex, const Comments &comments) | bpp::VectorSiteContainer | virtual |
setComments(const std::string &name, const Comments &comments)=0 | bpp::VectorSiteContainer | virtual |
setComments(size_t sequenceIndex, const Comments &comments)=0 | bpp::VectorSiteContainer | virtual |
setGeneralComments(const Comments &comments)=0 | bpp::VectorSiteContainer | pure virtual |
setGeneralComments(const Comments &comments) | bpp::VectorSiteContainer | virtual |
setGeneralComments(const Comments &comments) | bpp::VectorSiteContainer | virtual |
setGroupId(size_t index, size_t group_id) | bpp::PolymorphismSequenceContainer | |
setGroupId(const std::string &name, size_t group_id) | bpp::PolymorphismSequenceContainer | |
setObjectName(size_t pos, const std::string &name) | bpp::VectorSiteContainer | |
setObjectsNames(const std::vector< std::string > &names) | bpp::VectorSiteContainer | |
setSequence(const std::string &name, const Sequence &sequence, bool checkName) | bpp::VectorSiteContainer | virtual |
setSequence(size_t sequenceIndex, const Sequence &sequence, bool checkName) | bpp::VectorSiteContainer | virtual |
setSequenceCount(size_t index, unsigned int count) | bpp::PolymorphismSequenceContainer | |
setSequenceCount(const std::string &name, unsigned int count) | bpp::PolymorphismSequenceContainer | |
setSequencesNames(const std::vector< std::string > &names, bool checkNames=true) | bpp::VectorSiteContainer | virtual |
setSequencesNames(const std::vector< std::string > &names, bool checkNames=true) | bpp::VectorSiteContainer | virtual |
setSite(size_t siteIndex, const Site &site, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
setSite(size_t siteIndex, const Site &site, bool checkPosition=true) | bpp::VectorSiteContainer | virtual |
setSitePositions(Vint vPositions) | bpp::VectorSiteContainer | virtual |
setSitePositions(Vint vPositions) | bpp::VectorSiteContainer | virtual |
setSize(size_t size) | bpp::VectorSiteContainer | virtual |
setSize(size_t size) | bpp::VectorSiteContainer | virtual |
SiteContainer() | bpp::SiteContainer | |
toSiteContainer() const | bpp::PolymorphismSequenceContainer | |
toString(const std::string &name) const | bpp::VectorSiteContainer | virtual |
toString(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
toString(size_t sequenceIndex) const =0 | bpp::VectorSiteContainer | virtual |
toString(size_t sequenceIndex) const | bpp::VectorSiteContainer | virtual |
toString(size_t sequenceIndex) const =0 | bpp::VectorSiteContainer | virtual |
valueAt(const std::string &sequenceName, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
valueAt(const std::string &sequenceName, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
valueAt(size_t sequenceIndex, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
valueAt(size_t sequenceIndex, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
valueAt(const std::string &sequenceName, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
valueAt(const std::string &sequenceName, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
valueAt(size_t sequenceIndex, size_t elementIndex) | bpp::VectorSiteContainer | virtual |
valueAt(size_t sequenceIndex, size_t elementIndex) const | bpp::VectorSiteContainer | virtual |
VectorMappedContainer() | VectorMappedContainer< Sequence > | |
VectorMappedContainer(const VectorMappedContainer &vsc) | VectorMappedContainer< Sequence > | |
VectorPositionedContainer< Site >::VectorPositionedContainer(const std::vector< std::shared_ptr< Site > > &vs) | VectorPositionedContainer< Site > | |
VectorPositionedContainer< Site >::VectorPositionedContainer(size_t size=0) | VectorPositionedContainer< Site > | |
VectorPositionedContainer< Site >::VectorPositionedContainer(const VectorPositionedContainer< Site > &vsc) | VectorPositionedContainer< Site > | |
VectorMappedContainer< Sequence >::VectorPositionedContainer(const std::vector< std::shared_ptr< T > > &vs) | bpp::VectorPositionedContainer< class > | |
VectorMappedContainer< Sequence >::VectorPositionedContainer(size_t size=0) | bpp::VectorPositionedContainer< class > | |
VectorMappedContainer< Sequence >::VectorPositionedContainer(const VectorPositionedContainer< T > &vsc) | bpp::VectorPositionedContainer< class > | |
VectorSiteContainer(const std::vector< const CruxSymbolListSite * > &vs, const Alphabet *alpha, bool checkPositions=true) | bpp::VectorSiteContainer | |
VectorSiteContainer(const std::vector< const Site * > &vs, const Alphabet *alpha, bool checkPositions=true) | bpp::VectorSiteContainer | |
VectorSiteContainer(size_t size, const Alphabet *alpha) | bpp::VectorSiteContainer | |
VectorSiteContainer(const std::vector< std::string > &names, const Alphabet *alpha) | bpp::VectorSiteContainer | |
VectorSiteContainer(const Alphabet *alpha) | bpp::VectorSiteContainer | |
VectorSiteContainer(const VectorSiteContainer &vsc) | bpp::VectorSiteContainer | |
VectorSiteContainer(const SiteContainer &sc) | bpp::VectorSiteContainer | |
VectorSiteContainer(const OrderedSequenceContainer &osc) | bpp::VectorSiteContainer | |
VectorSiteContainer(const SequenceContainer &sc) | bpp::VectorSiteContainer | |
VectorSiteContainer(const AlignedValuesContainer &avc) | bpp::VectorSiteContainer | |
vNames_ | bpp::VectorSiteContainer | private |
~AbstractSequenceContainer() | bpp::AbstractSequenceContainer | virtual |
~AbstractValuesContainer() | bpp::AbstractValuesContainer | virtual |
~AlignedValuesContainer() | bpp::AlignedValuesContainer | virtual |
~Clonable()=default | bpp::Clonable | virtual |
~Commentable() | bpp::Commentable | virtual |
~MappedNamedContainer() | bpp::MappedNamedContainer< class > | virtual |
~NamedContainer() | bpp::NamedContainer< class > | privatevirtual |
~OrderedSequenceContainer() | bpp::OrderedSequenceContainer | virtual |
~OrderedValuesContainer() | bpp::OrderedValuesContainer | virtual |
~PolymorphismSequenceContainer() | bpp::PolymorphismSequenceContainer | virtual |
~PositionedContainer() | bpp::PositionedContainer< class > | virtual |
~PositionedNamedContainer() | bpp::PositionedNamedContainer< class > | virtual |
~SequenceContainer() | bpp::SequenceContainer | virtual |
~SequencedValuesContainer() | bpp::SequencedValuesContainer | virtual |
~SiteContainer() | bpp::SiteContainer | virtual |
VectorPositionedContainer< Site >::~VectorPositionedContainer() | VectorPositionedContainer< Site > | virtual |
VectorMappedContainer< Sequence >::~VectorPositionedContainer() | bpp::VectorPositionedContainer< class > | virtual |
~VectorSiteContainer() | bpp::VectorSiteContainer | virtual |