Index _ | A | B | C | D | E | F | G | I | L | M | N | O | P | R | S | T | V | W | X _ _assignDensity() (fretraj.grid.Grid3D static method) _assignRho() (fretraj.grid.Grid3D static method) _carve_VdWextraClash() (fretraj.grid.Grid3D static method) _change_model() (in module fretraj.jupyter) _create_volume_topology() (in module fretraj.cloud) _dye_acc_surf() (fretraj.cloud.Volume method) _neighborIdx() (fretraj.grid.Grid3D static method) _on_slider_value_change() (in module fretraj.jupyter) _reweight_cv() (fretraj.cloud.ACV method) _tag_volume() (fretraj.cloud.ACV method) _weight_factor() (fretraj.cloud.ACV static method) _weighted_quantile_1D() (fretraj.cloud.Volume static method) _xyz2idx() (fretraj.grid.Grid3D static method) A ACV (class in fretraj.cloud) acv_subsampling() (in module fretraj.cloud) addRelaxationEvent() (fretraj.burst.Burst method) addWeights() (fretraj.grid.Grid3D method) attach_xyz (fretraj.cloud.Volume property) B block_molecule() (fretraj.grid.Grid3D method) Burst (class in fretraj.burst) C calc_acv() (fretraj.cloud.Volume method) calc_av() (fretraj.cloud.Volume method) calcAnisotropy() (fretraj.burst.Experiment static method) calcBurst() (fretraj.burst.Experiment method) calcBurstsizes() (fretraj.burst.Experiment method) calcFRET() (fretraj.burst.Burst method) calcTransferRate() (fretraj.burst.Experiment method) calcTransitionRates() (fretraj.burst.Experiment method) check_labels() (in module fretraj.cloud) checkBurstSizeReached() (fretraj.burst.Burst method) checkLengthIdentity() (fretraj.burst.Trajectory method) checkTimeStepIdentity() (fretraj.burst.Ensemble method) connect2pymol() (in module fretraj.jupyter) create_acv_traj() (in module fretraj.cloud) D dataframe (fretraj.cloud.Trajectory property) dijkstra() (fretraj.grid.Grid3D static method) dijkstra_init() (fretraj.grid.Grid3D method) dist_attach() (in module fretraj.fret) dist_mp() (in module fretraj.fret) distance_restraint() (fretraj.restraints.Plumed method) dists_DA() (in module fretraj.fret) dists_DA_ll() (in module fretraj.fret) E Ensemble (class in fretraj.burst) essential_neighbors() (fretraj.grid.Grid3D method) excludeConcentricSpheres() (fretraj.grid.Grid3D method) Experiment (class in fretraj.burst) F FRET (class in fretraj.cloud) FRET_DA() (in module fretraj.fret) fretraj.burst module fretraj.cloud module fretraj.export module fretraj.fret module fretraj.grid module fretraj.jupyter module fretraj.restraints module from_attachID() (fretraj.cloud.Volume class method) from_file() (fretraj.burst.Trajectory class method) from_frames() (fretraj.cloud.Volume class method) from_volumes() (fretraj.cloud.FRET class method) G gaussian() (fretraj.burst.Experiment method) grid2pts() (fretraj.cloud.Volume static method) Grid3D (class in fretraj.grid) I in_notebook() (in module fretraj.burst) L labeling_params() (in module fretraj.cloud) load() (fretraj.burst.Experiment class method) load_acv_traj() (in module fretraj.cloud) load_obj() (in module fretraj.cloud) M make_grid() (fretraj.grid.Grid3D static method) mean_dist_DA() (in module fretraj.fret) mean_dist_DA_fromFRET() (in module fretraj.fret) mean_dist_DA_ll() (in module fretraj.fret) mean_FRET_DA() (in module fretraj.fret) mean_FRET_DA_ll() (in module fretraj.fret) mean_pos() (fretraj.cloud.Volume static method) model_slider() (in module fretraj.jupyter) module fretraj.burst fretraj.cloud fretraj.export fretraj.fret fretraj.grid fretraj.jupyter fretraj.restraints mol_xyzr (fretraj.cloud.Volume property) N nglview_multimodel_ACV() (in module fretraj.jupyter) nglview_trajectory() (in module fretraj.jupyter) nglview_trajectory_ACV() (in module fretraj.jupyter) nglview_trajectory_AV() (in module fretraj.jupyter) O open_dx() (in module fretraj.export) P parseCmd() (in module fretraj.burst) pdb() (in module fretraj.export) pipeline_frames() (in module fretraj.cloud) Plumed (class in fretraj.restraints) polarizationIntensity() (fretraj.burst.Experiment static method) print_results() (fretraj.burst.Experiment method) print_settings() (fretraj.burst.Experiment method) printProgressBar() (in module fretraj.cloud) R R_DAE_to_Rmp() (in module fretraj.fret) readParameters() (in module fretraj.burst) Relaxation (class in fretraj.burst) render_view() (in module fretraj.jupyter) reshape_grid() (fretraj.cloud.Volume static method) S save() (fretraj.burst.Experiment method) save_acv() (fretraj.cloud.Volume method) save_acv_traj() (in module fretraj.cloud) save_fret() (fretraj.cloud.FRET method) save_labels() (in module fretraj.cloud) save_mp() (fretraj.cloud.Volume method) save_mp_traj() (in module fretraj.cloud) save_obj() (in module fretraj.cloud) save_structure_traj() (in module fretraj.cloud) save_traj() (fretraj.cloud.Trajectory method) setAboveTreshold() (fretraj.grid.Grid3D static method) shot_noise_width() (fretraj.burst.Experiment static method) sortedNeighborIdx() (fretraj.grid.Grid3D method) Species (class in fretraj.burst) std_dist_DA() (in module fretraj.fret) std_dist_DA_fromFRET() (in module fretraj.fret) std_FRET_DA() (in module fretraj.fret) T Trajectory (class in fretraj.burst) (class in fretraj.cloud) transitionDipole() (fretraj.burst.Trajectory static method) V values (fretraj.cloud.FRET property) Volume (class in fretraj.cloud) W write_plumed() (fretraj.restraints.Plumed method) write_pseudo() (fretraj.restraints.Plumed method) write_pymol() (fretraj.restraints.Plumed method) write_vmd() (fretraj.restraints.Plumed method) X xyz() (in module fretraj.export)
