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IMP Reference Guide
2.6.1
The Integrative Modeling Platform
IMP Manual
Reference Guide
Modules
Classes
Examples
Class List
Class Index
Class Hierarchy
Class Members
All
Functions
Variables
Enumerations
Related Functions
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accept() :
IMP::core::MonteCarloMover
add() :
IMP::container::DynamicListPairContainer
,
IMP::container::DynamicListQuadContainer
,
IMP::container::DynamicListSingletonContainer
,
IMP::container::DynamicListTripletContainer
,
IMP::container::ListPairContainer
,
IMP::container::ListQuadContainer
,
IMP::container::ListSingletonContainer
,
IMP::container::ListTripletContainer
,
IMP::em::DensityMap
,
IMP.EMageFit.buildxlinks.XlinksDict
,
IMP::saxs::Profile
,
IMP::saxs::RadialDistributionFunction
,
IMP::statistics::HistogramD< D, Grid >
add_alias() :
IMP::Key< ID, LazyAdd >
add_all_atom_densities() :
IMP.pmi.representation.Representation
add_all_restraints() :
IMP::multifit::ProteomicsEMAlignmentAtomic
add_atom_types() :
IMP::atom::CHARMMTopology
add_attribute() :
IMP::Model
add_bonds() :
IMP::atom::CHARMMTopology
,
IMP::atom::ForceFieldParameters
add_branch_and_bound_assignments_table() :
IMP.EMageFit.domino_model.DominoModel
add_cache_attribute() :
IMP::Model
add_category() :
IMP.isd.Statistics.Statistics
add_ccc_table() :
IMP.EMageFit.solutions_io.ResultsDB
add_charges() :
IMP::atom::CHARMMTopology
add_child() :
IMP::atom::Hierarchy
add_close_pair_score() :
IMP::core::IncrementalScoringFunction
add_cluster_record() :
IMP.EMageFit.solutions_io.ResultsDB
add_clusters_table() :
IMP.EMageFit.solutions_io.ResultsDB
add_column() :
IMP.EMageFit.database.Database2
add_columns() :
IMP.EMageFit.database.Database2
add_component_beads() :
IMP.pmi.representation.Representation
add_component_density() :
IMP.pmi.representation.Representation
add_component_hierarchy_clone() :
IMP.pmi.representation.Representation
add_component_necklace() :
IMP.pmi.representation.Representation
add_component_pdb() :
IMP.pmi.representation.Representation
add_component_sequence() :
IMP.pmi.representation.Representation
add_configuration() :
IMP::statistics::ChiSquareMetric
add_contribution() :
IMP::isd::AtomicCrossLinkMSRestraint
add_coordinates() :
IMP::atom::CHARMMTopology
,
IMP.isd.Statistics.Statistics
add_data() :
IMP.isd.Analysis.Analysis
,
IMP::Model
add_data_pt() :
IMP::kmeans::KMeans
add_dihedrals() :
IMP::atom::CHARMMTopology
add_downstream_joint() :
IMP::kinematics::CompositeJoint
add_edge() :
IMP::kinematics::KinematicForest
add_entry() :
IMP.isd.Statistics.Statistics
add_entry_point() :
IMP::core::RigidBodyTunneler
add_errors() :
IMP::saxs::Profile
add_exclusion_filter_table() :
IMP.EMageFit.domino_model.DominoModel
add_full_datum() :
IMP.isd.TALOSReader.TALOSReader
add_impropers() :
IMP::atom::CHARMMTopology
add_in_plane_transformation() :
IMP::em2d::RegistrationResult
add_internal_transformations() :
IMP::em2d::RelativePositionMover
add_mean_datum() :
IMP.isd.TALOSReader.TALOSReader
add_member() :
IMP::core::RigidBody
add_missing_atoms() :
IMP::atom::CHARMMTopology
add_native_record() :
IMP.EMageFit.solutions_io.ResultsDB
add_noise() :
IMP::saxs::Profile
add_non_rigid_member() :
IMP::core::RigidBody
add_partial_profiles() :
IMP::saxs::Profile
add_particle() :
IMP::container::DynamicListSingletonContainer
,
IMP::core::TableRefiner
,
IMP::Model
add_particle_pair() :
IMP::container::DynamicListPairContainer
add_particle_pairs() :
IMP::container::DynamicListPairContainer
add_particle_quad() :
IMP::container::DynamicListQuadContainer
add_particle_quads() :
IMP::container::DynamicListQuadContainer
add_particle_triplet() :
IMP::container::DynamicListTripletContainer
add_particle_triplets() :
IMP::container::DynamicListTripletContainer
add_particles() :
IMP::container::DynamicListSingletonContainer
add_placement_scores_table() :
IMP.EMageFit.solutions_io.ResultsDB
add_predicate() :
IMP::container::DistributePairsScoreState
,
IMP::container::DistributeQuadsScoreState
,
IMP::container::DistributeSingletonsScoreState
,
IMP::container::DistributeTripletsScoreState
add_protein() :
IMP::multifit::ProteomicsData
add_radii() :
IMP::atom::ForceFieldParameters
add_record() :
IMP.EMageFit.solutions_io.ResultsDB
add_representation() :
IMP::atom::Representation
,
IMP.pmi.topology.Molecule
add_restraint() :
IMP.EMageFit.domino_model.DominoModel
add_restraint_score_filter_table() :
IMP.EMageFit.domino_model.DominoModel
add_restraints() :
IMP::domino::RestraintCache
add_results_table() :
IMP.EMageFit.solutions_io.ResultsDB
add_rigid_bodies_in_chain() :
IMP::kinematics::KinematicForest
add_rmf() :
IMP.pmi.plotting.topology.TopologyPlot
add_score() :
IMP::ScoreAccumulator
add_score_and_derivatives() :
IMP::Restraint
add_sequence() :
IMP::atom::CHARMMTopology
add_slave() :
IMP.parallel.Manager
add_solution() :
IMP::em::FittingSolutions
add_state() :
IMP.pmi.macros.BuildSystem
add_structure() :
IMP.pmi.analysis.Precision
,
IMP.pmi.topology.Molecule
add_structures() :
IMP.pmi.analysis.Precision
add_subunits_density() :
IMP.pmi.analysis.GetModelDensity
add_target_density_to_hierarchy() :
IMP.pmi.restraints.em.GaussianEMRestraint
add_task() :
IMP.parallel.Context
add_term() :
IMP::modeller::MultipleBinormalRestraint
add_to_derivative() :
IMP::core::XYZ
add_to_derivatives() :
IMP::core::XYZ
,
IMP::isd::BivariateFunction
,
IMP::isd::Covariance1DFunction
,
IMP::isd::GeneralizedGuinierPorodFunction
,
IMP::isd::Linear1DFunction
,
IMP::isd::UnivariateFunction
add_to_map() :
IMP::em::DensityMap
add_to_model() :
IMP.pmi.restraints.crosslinking.CrossLinkingMassSpectrometryRestraint
add_to_particle_derivative() :
IMP::isd::BivariateFunction
,
IMP::isd::Covariance1DFunction
,
IMP::isd::GeneralizedGuinierPorodFunction
,
IMP::isd::Linear1DFunction
,
IMP::isd::UnivariateFunction
add_undecorator() :
IMP::Model
add_upstream_joint() :
IMP::kinematics::CompositeJoint
add_voxel() :
IMP::algebra::SparseGridStorageD< D, VT, Base, Map >
add_weight() :
IMP::isd::Weight
add_well_depths() :
IMP::atom::ForceFieldParameters
after_evaluate() :
IMP::ScoreState
align() :
IMP::em::PCAAligner
align_rigid_bodies_states() :
IMP.EMageFit.domino_model.DominoModel
AlignSymmetric() :
IMP::cnmultifit::AlignSymmetric
AllPairContainer() :
IMP::container::AllPairContainer
AmbiguousNOERestraint() :
IMP::isd::AmbiguousNOERestraint
AmbiguousRestraint() :
IMP::isd::AmbiguousRestraint
AngleRestraint() :
IMP::core::AngleRestraint
AngleSingletonScore() :
IMP::atom::AngleSingletonScore
AngleTripletScore() :
IMP::core::AngleTripletScore
append() :
IMP.isd.utils.Pipe
apply() :
IMP::atom::CHARMMPatch
,
IMP::em2d::ProjectionMask
,
IMP::kinematics::DOFsSampler
,
IMP::kinematics::UniformBackboneSampler
,
IMP::PairContainer
,
IMP::QuadContainer
,
IMP::SingletonContainer
,
IMP::TripletContainer
apply_default_patches() :
IMP::atom::CHARMMSegmentTopology
,
IMP::atom::CHARMMTopology
apply_generic() :
IMP::container::ConsecutivePairContainer
,
IMP::container::ExclusiveConsecutivePairContainer
,
IMP::container::PairContainerSet
,
IMP::container::QuadContainerSet
,
IMP::container::SingletonContainerSet
,
IMP::container::TripletContainerSet
,
IMP::PairContainer
,
IMP::QuadContainer
,
IMP::SingletonContainer
,
IMP::TripletContainer
apply_index() :
IMP::atom::CoverBond
,
IMP::core::CentroidOfRefined
,
IMP::core::CoverRefined
,
IMP::core::DerivativesFromRefined
,
IMP::core::DerivativesToRefined
,
IMP::core::Transform
,
IMP::core::TransformationAndReflectionSymmetry
,
IMP::core::TransformationSymmetry
,
IMP::core::WeightedDerivativesToRefined
,
IMP::example::ExampleSingletonModifier
,
IMP::PairModifier
,
IMP::QuadModifier
,
IMP::SingletonModifier
,
IMP::TripletModifier
apply_indexes() :
IMP::atom::CoverBond
,
IMP::core::CentroidOfRefined
,
IMP::core::CoverRefined
,
IMP::core::DerivativesFromRefined
,
IMP::core::DerivativesToRefined
,
IMP::core::Transform
,
IMP::core::TransformationAndReflectionSymmetry
,
IMP::core::TransformationSymmetry
,
IMP::core::WeightedDerivativesToRefined
,
IMP::example::ExampleSingletonModifier
,
IMP::PairModifier
,
IMP::QuadModifier
,
IMP::SingletonModifier
,
IMP::TripletModifier
apply_last_sample() :
IMP::kinematics::DOFsSampler
apply_to_current_contents() :
IMP::SparseSymmetricPairMemoizer< Generator, Checker >
assert_number() :
IMP.test.DirectorObjectChecker
,
IMP.test.RefCountChecker
assertApplicationExitedCleanly() :
IMP.test.ApplicationTestCase
assertClassNames() :
IMP.test.TestCase
assertFunctionNames() :
IMP.test.TestCase
assertNotImplemented() :
IMP.test.TestCase
assertRaisesInternalException() :
IMP.test.TestCase
assertRaisesUsageException() :
IMP.test.TestCase
assertShow() :
IMP.test.TestCase
assertValueObjects() :
IMP.test.TestCase
assertXYZDerivativesInTolerance() :
IMP.test.TestCase
assign_velocities() :
IMP::atom::MolecularDynamics
,
IMP::isd::MolecularDynamics
at() :
IMP::algebra::ExtendedGridIndexD< D >
AtomicCrossLinkMSRestraint() :
IMP::isd::AtomicCrossLinkMSRestraint