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MDAT::ProteinSequenceSet< MemoryType > Member List

This is the complete list of members for MDAT::ProteinSequenceSet< MemoryType >, including all inherited members.

add_pfam_domains(const std::string &domain_f)MDAT::ProteinSequenceSet< MemoryType >
add_seq(ProteinSequence *seq)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
avg_size() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >
clean_up_domains(unsigned char options)MDAT::ProteinSequenceSet< MemoryType >
clear()MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
delete_seqs(const std::map< std::string, bool > &names)MDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual
delete_seqs(std::vector< size_t > &indices)MDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual
dom_archis()MDAT::ProteinSequenceSet< MemoryType >inline
dom_archis() const MDAT::ProteinSequenceSet< MemoryType >inline
dom_archis(DomainArchitectureSet dom_arch) (defined in MDAT::ProteinSequenceSet< MemoryType >)MDAT::ProteinSequenceSet< MemoryType >inline
domain_column_split(const ProteinSequenceSet< MemoryType > &set, SplitSet< ProteinSequenceSet< Default > > &splitSet)MDAT::ProteinSequenceSet< MemoryType >related
domain_name(size_t i) const MDAT::ProteinSequenceSet< MemoryType >inline
empty() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
extract_architectures()MDAT::ProteinSequenceSet< MemoryType >
file() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
id() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
id(int val)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
insert_gaps(const std::string &edit_string)MDAT::SequenceSetBase< ProteinSequence, MemoryType >
keep_seqs(std::vector< size_t > &indices)MDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual
length() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
n_architectures() const MDAT::ProteinSequenceSet< MemoryType >inline
n_domains() const MDAT::ProteinSequenceSet< MemoryType >inline
n_seqs() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
operator[](unsigned int index)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
operator[](unsigned int index) constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
operator[](const std::string &seq_name)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
operator[](const std::string &seq_name) constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
ProteinSequenceSet() (defined in MDAT::ProteinSequenceSet< MemoryType >)MDAT::ProteinSequenceSet< MemoryType >inline
ProteinSequenceSet(size_t id_val) (defined in MDAT::ProteinSequenceSet< MemoryType >)MDAT::ProteinSequenceSet< MemoryType >inline
ProteinSequenceSet(const ProteinSequenceSet &)=delete (defined in MDAT::ProteinSequenceSet< MemoryType >)MDAT::ProteinSequenceSet< MemoryType >
ProteinSequenceSet(ProteinSequenceSet &&)=default (defined in MDAT::ProteinSequenceSet< MemoryType >)MDAT::ProteinSequenceSet< MemoryType >
read(const std::string &seq_f, const std::vector< std::string > &seq_names, bool check=false, short format=-1)MDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual
read(const std::string &seq_f, bool check=false, short format=-1)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inlinevirtual
refine_boundaries()MDAT::ProteinSequenceSet< MemoryType >
seq(unsigned int index) constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
seq_type() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
seq_type(char seq_type_)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
SequenceSetBase()MDAT::SequenceSetBase< ProteinSequence, MemoryType >
SequenceSetBase(size_t value) (defined in MDAT::SequenceSetBase< ProteinSequence, MemoryType >)MDAT::SequenceSetBase< ProteinSequence, MemoryType >
share(const SequenceSetBase< ProteinSequence, MemoryType > &set, size_t id)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
size() constMDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
sort(std::string type)MDAT::SequenceSetBase< ProteinSequence, MemoryType >
splitByArchitecture(const ProteinSequenceSet< MemoryType > &set, std::vector< ProteinSequenceSet< MemoryType > > &architectureSplits)MDAT::ProteinSequenceSet< MemoryType >related
to_lower()MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
to_upper()MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
transfer(SequenceSetBase< ProteinSequence, MemoryType > &set, size_t id)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
transfer(SequenceSetBase< ProteinSequence, MemoryType > &set)MDAT::SequenceSetBase< ProteinSequence, MemoryType >inline
value_type typedefMDAT::SequenceSetBase< ProteinSequence, MemoryType >
write(const std::string &seq_f, const std::string format) constMDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual
write_domArchitecture(const std::string &out_f) const MDAT::ProteinSequenceSet< MemoryType >
~SequenceSetBase()MDAT::SequenceSetBase< ProteinSequence, MemoryType >virtual