sequence_comparation

Bindings for core::io::sequence_comparation namespace

class pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast

Bases: pybind11_object

DesignContrast contains information for comparing the native protein sequence to designed protein sequence. And output the compare resultes to a special formated file which can be used for statistics calculations

assign(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast, : pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast

C++: core::io::sequence_comparation::DesignContrast::operator=(const class core::io::sequence_comparation::DesignContrast &) –> class core::io::sequence_comparation::DesignContrast &

clear(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → None

clear function to clear all datas in this class.

C++: core::io::sequence_comparation::DesignContrast::clear() –> void

getListNames(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.utility.vector1_utility_file_FileName

C++: core::io::sequence_comparation::DesignContrast::getListNames() –> class utility::vector1<class utility::file::FileName, class std::allocator<class utility::file::FileName> > &

getNeighbors(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.utility.vector1_int

Get number of neighbors for all residues in pose

C++: core::io::sequence_comparation::DesignContrast::getNeighbors() –> class utility::vector1<int, class std::allocator<int> > &

getPdbCodes(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.utility.vector1_std_string

C++: core::io::sequence_comparation::DesignContrast::getPdbCodes() –> class utility::vector1<std::string, class std::allocator<std::string > > &

getPdbNames(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.utility.vector1_utility_file_FileName

C++: core::io::sequence_comparation::DesignContrast::getPdbNames() –> class utility::vector1<class utility::file::FileName, class std::allocator<class utility::file::FileName> > &

getSecStruct(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → pyrosetta.rosetta.utility.vector1_std_string

Get secondary structure for all residues in pose

C++: core::io::sequence_comparation::DesignContrast::getSecStruct() –> class utility::vector1<std::string, class std::allocator<std::string > > &

output_sqc_file(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast, native_pose: pyrosetta.rosetta.core.pose.Pose, decoy_pose: pyrosetta.rosetta.core.pose.Pose, single_code: str, sqc: pyrosetta.rosetta.std.ofstream) → None

this function will output the sequence comparing result between native pose and designed pose

C++: core::io::sequence_comparation::DesignContrast::output_sqc_file(class core::pose::Pose &, class core::pose::Pose &, const std::string &, class std::basic_ofstream<char> &) –> void

setNames(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → None

Get pdb file names from the pdb list files.

C++: core::io::sequence_comparation::DesignContrast::setNames() –> void

setNeighbors(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast, pose: pyrosetta.rosetta.core.pose.Pose) → None

Set number of neighbors for all residues in pose

C++: core::io::sequence_comparation::DesignContrast::setNeighbors(class core::pose::Pose &) –> void

setPdbCodes(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast) → None

C++: core::io::sequence_comparation::DesignContrast::setPdbCodes() –> void

setSecStruct(self: pyrosetta.rosetta.core.io.sequence_comparation.DesignContrast, pose: pyrosetta.rosetta.core.pose.Pose) → None

Set secondary structure for all residues in pose

C++: core::io::sequence_comparation::DesignContrast::setSecStruct(class core::pose::Pose &) –> void