utility class and functions for dealing with sequence profiles for varying segments in Splice More...

Inheritance diagram for protocols::protein_interface_design::movers::SpliceSegment:

Collaboration diagram for protocols::protein_interface_design::movers::SpliceSegment:

Public Member Functions
	SpliceSegment ()

virtual	~SpliceSegment ()

void	read_profile (std::string const file_name, std::string const segment_name)

void	read_pdb_profile (std::string const file_name)
	read pssm More...

core::sequence::SequenceProfileOP	get_profile (std::string const segment_name)
	read the pdb-profile match from a disk file More...

void	add_pdb_profile_pair (std::string const pdb, std::string const profile_name)

core::sequence::SequenceProfileOP	pdb_profile (std::string const pdb_name)
	add a sequence profile More...

core::sequence::SequenceProfileOP	sequence_profile (std::string const profile_name)

Private Attributes
std::map< std::string, core::sequence::SequenceProfileOP >	sequence_profile_

std::map< std::string, std::string >	pdb_to_profile_map_

Detailed Description

utility class and functions for dealing with sequence profiles for varying segments in Splice

Definition at line 40 of file SpliceSegment.hh.

Constructor & Destructor Documentation

protocols::protein_interface_design::movers::SpliceSegment::SpliceSegment ( )

Definition at line 37 of file SpliceSegment.cc.

protocols::protein_interface_design::movers::SpliceSegment::~SpliceSegment ( )

virtual

Definition at line 42 of file SpliceSegment.cc.

void protocols::protein_interface_design::movers::SpliceSegment::add_pdb_profile_pair	(	std::string const	pdb,
		std::string const	profile_name
	)

Definition at line 59 of file SpliceSegment.cc.

SequenceProfileOP protocols::protein_interface_design::movers::SpliceSegment::get_profile ( std::string const segment_name)

read the pdb-profile match from a disk file

Definition at line 54 of file SpliceSegment.cc.

SequenceProfileOP protocols::protein_interface_design::movers::SpliceSegment::pdb_profile ( std::string const pdb_name)

add a sequence profile

this is the most useful method, returning the sequence profile according to a pdb file name

Definition at line 65 of file SpliceSegment.cc.

void protocols::protein_interface_design::movers::SpliceSegment::read_pdb_profile ( std::string const file_name)

read pssm

reads the pdb-profile match file, matching each pdb file to one profile

Definition at line 91 of file SpliceSegment.cc.

void protocols::protein_interface_design::movers::SpliceSegment::read_profile	(	std::string const	file_name,
		std::string const	segment_name
	)

Definition at line 45 of file SpliceSegment.cc.

core::sequence::SequenceProfileOP protocols::protein_interface_design::movers::SpliceSegment::sequence_profile ( std::string const profile_name)

Definition at line 70 of file SpliceSegment.cc.

std::map< std::string, std::string > protocols::protein_interface_design::movers::SpliceSegment::pdb_to_profile_map_

private

Definition at line 53 of file SpliceSegment.hh.

std::map< std::string, core::sequence::SequenceProfileOP > protocols::protein_interface_design::movers::SpliceSegment::sequence_profile_

private

Definition at line 52 of file SpliceSegment.hh.

The documentation for this class was generated from the following files: