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IMP Reference Guide
2.20.2
The Integrative Modeling Platform
IMP Manual
Reference Guide
Tutorial Index
Modules
Classes
Examples
Class List
Class Index
Class Hierarchy
Class Members
All
Functions
Variables
Enumerations
Related Functions
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- c -
CAAngleRestraint() :
IMP::atom::CAAngleRestraint
CADihedralRestraint() :
IMP::atom::CADihedralRestraint
calc_all_voxel2loc() :
IMP::em::DensityMap
calc_symm_score() :
IMP::cnmultifit::MolCnSymmAxisDetector
calcRMS() :
IMP::em::DensityMap
calculate_derivative_distribution() :
IMP::saxs::DeltaDistributionFunction
calculate_I0() :
IMP::saxs::Profile
calculate_particles_bounding_box() :
IMP::em::SampledDensityMap
calculate_profile() :
IMP::saxs::Profile
calculate_profile_constant_form_factor() :
IMP::saxs::Profile
calculate_profile_partial() :
IMP::saxs::Profile
cap_velocity_component() :
IMP::atom::MolecularDynamics
,
IMP::spb::MolecularDynamicsWithWte
CCDLoopClosure() :
IMP::kinematics::CCDLoopClosure
center_model_on_target_density() :
IMP.bayesianem.restraint.GaussianEMRestraintWrapper
center_on_target_density() :
IMP.bayesianem.restraint.GaussianEMRestraintWrapper
center_target_density_on_model() :
IMP.bayesianem.restraint.GaussianEMRestraintWrapper
center_target_density_on_origin() :
IMP.bayesianem.restraint.GaussianEMRestraintWrapper
CentroidOfRefined() :
IMP::core::CentroidOfRefined
ChainPDBSelector() :
IMP::atom::ChainPDBSelector
ChainStatisticsOptimizerState() :
IMP::npctransport::ChainStatisticsOptimizerState
CHARMMParameters() :
IMP::atom::CHARMMParameters
CHARMMPatch() :
IMP::atom::CHARMMPatch
CHARMMResidueTopology() :
IMP::atom::CHARMMResidueTopology
CHARMMStereochemistryRestraint() :
IMP::atom::CHARMMStereochemistryRestraint
check_cache_valid() :
IMP::score_functor::ScoreWithCache
check_cross_link_consistency() :
IMP.pmi.io.crosslink.CrossLinkDataBase
check_if_is_connected() :
IMP.EMageFit.database.Database2
check_keys() :
IMP.pmi.io.crosslink.CrossLinkDataBaseKeywordsConverter
,
IMP.pmi1.io.crosslink.CrossLinkDataBaseKeywordsConverter
check_root() :
IMP.pmi1.representation.Representation
check_runnable_python_module() :
IMP.test.TestCase
check_standard_object_methods() :
IMP.test.TestCase
check_unary_function_deriv() :
IMP.test.TestCase
check_unary_function_min() :
IMP.test.TestCase
ChildrenRefiner() :
IMP::core::ChildrenRefiner
classify_crosslinks_by_score() :
IMP.pmi.io.crosslink.CrossLinkDataBase
clear() :
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::ImageHeader
,
IMP::misc::LogPairScore
,
IMP::multifit::GeometricHash< T, D >
clear_caches() :
IMP::core::ExcludedVolumeRestraint
,
IMP::core::MinimumRestraint
,
IMP::Object
clear_data() :
IMP::kmeans::KMeans
clear_particle_caches() :
IMP::Model
clear_range_cache() :
IMP::AttributeOptimizer
close() :
IMP.EMageFit.database.Database2
CloseBipartitePairContainer() :
IMP::container::CloseBipartitePairContainer
ClosedCubicSpline() :
IMP::core::ClosedCubicSpline
ClosePairContainer() :
IMP::container::ClosePairContainer
ClosePairsPairScore() :
IMP::core::ClosePairsPairScore
cluster() :
IMP.pmi.macros.AnalysisReplicaExchange
,
IMP.pmi1.macros.AnalysisReplicaExchange
clustering() :
IMP.pmi.macros.AnalysisReplicaExchange0
,
IMP.pmi1.macros.AnalysisReplicaExchange0
ClusterSet() :
IMP::em2d::ClusterSet
coarse_hierarchy() :
IMP.pmi1.representation.Representation
CollisionCrossSection() :
IMP::em2d::CollisionCrossSection
Color() :
IMP::display::Color
CompositeJoint() :
IMP::kinematics::CompositeJoint
CompositeRestraint() :
IMP::npc::CompositeRestraint
,
IMP::pmi1::CompositeRestraint
,
IMP::pmi::CompositeRestraint
compute_chisquare_derivative() :
IMP::saxs::DerivativeCalculator
compute_cluster_center() :
IMP.pmi.macros.AnalysisReplicaExchange
,
IMP.pmi1.macros.AnalysisReplicaExchange
compute_initial_scores() :
IMP::bayesianem::GaussianEMRestraint
,
IMP::isd::GaussianEMRestraint
compute_offset() :
IMP::saxs::ProfileFitter< ScoringFunctionT >
compute_scale_factor() :
IMP::saxs::ProfileFitter< ScoringFunctionT >
compute_score() :
IMP::saxs::ProfileFitter< ScoringFunctionT >
,
IMP::saxs::WeightedProfileFitter< ScoringFunctionT >
compute_xyz_top() :
IMP::em::DensityHeader
Cone3D() :
IMP::algebra::Cone3D
Configuration() :
IMP::Configuration
ConfigurationSetRMSDMetric() :
IMP::statistics::ConfigurationSetRMSDMetric
ConfigurationSetXYZEmbedding() :
IMP::statistics::ConfigurationSetXYZEmbedding
connect() :
IMP.EMageFit.database.Database2
ConnectingPairContainer() :
IMP::container::ConnectingPairContainer
ConnectivityRestraint() :
IMP::core::ConnectivityRestraint
ConsecutivePairFilter() :
IMP::container::ConsecutivePairFilter
ConstantRestraint() :
IMP::core::ConstantRestraint
constrain_symmetry() :
IMP.pmi.dof.DegreesOfFreedom
convolution() :
IMP::em::CoarseConvolution
copy_map() :
IMP::em::DensityMap
Cosine() :
IMP::core::Cosine
CoverRefined() :
IMP::core::CoverRefined
create() :
IMP::em2d::ProjectionMask
,
IMP.EMageFit.database.Database2
,
IMP::npctransport::ParticleFactory
,
IMP::rmf::SimpleLoadLink< O >
create_angles() :
IMP::atom::CHARMMParameters
create_backbone_restraint() :
IMP::npctransport::Scoring
create_bounding_volume_restraint() :
IMP::npctransport::Scoring
create_clone() :
IMP::atom::Hierarchy
,
IMP::atom::Selection
,
IMP.pmi.topology.Molecule
create_clone_one() :
IMP::atom::Hierarchy
create_close_beads_container() :
IMP::npctransport::Scoring
create_coarse_assembly() :
IMP.EMageFit.domino_model.DominoModel
create_components_from_rmf() :
IMP.pmi1.representation.Representation
create_copy() :
IMP.pmi.topology.Molecule
create_current_decomposition() :
IMP::PairScore
,
IMP::QuadScore
,
IMP::Restraint
,
IMP::SingletonScore
,
IMP::TripletScore
create_decomposition() :
IMP::Restraint
create_density_map() :
IMP::em::DensityMap
create_dihedrals() :
IMP::atom::CHARMMParameters
create_entry() :
IMP.isd.Analysis.Analysis
create_flexible_beads() :
IMP.pmi.dof.DegreesOfFreedom
create_fragment() :
IMP::atom::Hierarchy
create_hierarchy() :
IMP::atom::CHARMMTopology
create_main_chain_mover() :
IMP.pmi.dof.DegreesOfFreedom
create_maps_for_resampling() :
IMP::em2d::PolarResamplingParameters
create_mask() :
IMP::em2d::MasksManager
create_masks() :
IMP::em2d::MasksManager
create_membrane_density() :
IMP.pmi.restraints.basic.MembraneRestraint
create_merge_tree() :
IMP.EMageFit.domino_model.DominoModel
create_molecule() :
IMP.pmi.topology.State
create_new_keyword() :
IMP.pmi.io.crosslink.CrossLinkDataBase
create_non_modeled_component() :
IMP.pmi1.representation.Representation
create_nuisance_mover() :
IMP.pmi.dof.DegreesOfFreedom
create_particles_in_box() :
IMP.test.TestCase
create_point_particle() :
IMP.test.TestCase
create_predicates_pair_restraint() :
IMP::npctransport::Scoring
create_psi() :
IMP.pmi.restraints.crosslinking.CrossLinkingMassSpectrometryRestraint
,
IMP.pmi1.restraints.crosslinking.CrossLinkingMassSpectrometryRestraint
create_representation() :
IMP.pmi.mmcif.ProtocolOutput
,
IMP.pmi1.mmcif.ProtocolOutput
create_restraints() :
IMP::ScoringFunction
create_restraints_for_rmf() :
IMP.pmi.restraints.crosslinking.AtomicCrossLinkMSRestraint
,
IMP.pmi1.restraints.crosslinking.AtomicCrossLinkMSRestraint
create_rigid_body() :
IMP.pmi.dof.DegreesOfFreedom
create_rotational_symmetry() :
IMP.pmi1.representation.Representation
create_scoring_function() :
IMP::Restraint
create_set_from_file() :
IMP.pmi.io.crosslink.CrossLinkDataBase
create_sigma() :
IMP.pmi.restraints.crosslinking.CrossLinkingMassSpectrometryRestraint
,
IMP.pmi1.restraints.crosslinking.CrossLinkingMassSpectrometryRestraint
create_slab_restraint() :
IMP::npctransport::Scoring
create_state() :
IMP.pmi.topology.System
create_super_rigid_body() :
IMP.pmi.dof.DegreesOfFreedom
create_table() :
IMP.EMageFit.database.Database2
create_temperatures() :
IMP::mpi::ReplicaExchange
create_topology() :
IMP::atom::CHARMMParameters
create_transformed_component() :
IMP.pmi.mmcif.ProtocolOutput
,
IMP.pmi1.mmcif.ProtocolOutput
,
IMP.pmi1.representation.Representation
create_view() :
IMP.EMageFit.database.Database2
create_z_bias_restraint() :
IMP::npctransport::Scoring
CreateLogContext() :
IMP::CreateLogContext
CrossLinkMSRestraint() :
IMP::isd::CrossLinkMSRestraint
CysteineCrossLinkRestraint() :
IMP::isd::CysteineCrossLinkRestraint