bpp-seq  2.2.0
bpp::NexusIOSequence Member List

This is the complete list of members for bpp::NexusIOSequence, including all inherited members.

AbstractIAlignment()bpp::AbstractIAlignmentinline
appendAlignmentFromFile(const std::string &path, SiteContainer &sc) constbpp::AbstractIAlignmentinlineprotectedvirtual
appendAlignmentFromStream(std::istream &input, SiteContainer &sc) constbpp::NexusIOSequencevirtual
charsByLine_bpp::NexusIOSequenceprotected
checkNames() constbpp::NexusIOSequenceinline
checkNames(bool yn)bpp::NexusIOSequenceinline
checkNames_bpp::NexusIOSequenceprotected
getDataType() constbpp::IOSequenceinline
getFormatDescription() constbpp::NexusIOSequence
getFormatName() constbpp::NexusIOSequence
IAlignment()bpp::IAlignmentinline
IOSequence()bpp::IOSequenceinline
ISequence()bpp::ISequenceinline
NexusIOSequence(unsigned int charsByLine=100, bool checkSequenceNames=true)bpp::NexusIOSequenceinline
readAlignment(std::istream &input, SiteContainer &sc) constbpp::AbstractIAlignmentinlinevirtual
readAlignment(const std::string &path, SiteContainer &sc) constbpp::AbstractIAlignmentinlinevirtual
readAlignment(const std::string &path, const Alphabet *alpha) constbpp::AbstractIAlignmentinlinevirtual
readAlignment(std::istream &input, const Alphabet *alpha) constbpp::AbstractIAlignmentinlinevirtual
readAlignmentFromFile(const std::string &path, const Alphabet *alpha) constbpp::AbstractIAlignmentinlineprotectedvirtual
readAlignmentFromStream(std::istream &input, const Alphabet *alpha) constbpp::AbstractIAlignmentinlineprotectedvirtual
readSequences(std::istream &input, const Alphabet *alpha) constbpp::NexusIOSequenceinlinevirtual
readSequences(const std::string &path, const Alphabet *alpha) constbpp::NexusIOSequenceinlinevirtual
splitNameAndSequence_(const std::string &s) constbpp::NexusIOSequenceprivate
~AbstractIAlignment()bpp::AbstractIAlignmentinlinevirtual
~IAlignment()bpp::IAlignmentinlinevirtual
~IOSequence()bpp::IOSequenceinlinevirtual
~ISequence()bpp::ISequenceinlinevirtual
~NexusIOSequence()bpp::NexusIOSequenceinlinevirtual