Index

_

__init__() (soursop.sspre.SSPRE method) (soursop.sstrajectory.SSTrajectory method)

C

calculate_all_CA_distances() (soursop.ssprotein.SSProtein method) ccap (soursop.ssprotein.SSProtein attribute) compute_dihedral_hellingers() (soursop.sssampling.SamplingQuality method) compute_dihedral_rel_entropy() (soursop.sssampling.SamplingQuality method)

compute_frac_helicity() (soursop.sssampling.SamplingQuality method) compute_joint_hellinger_distance() (in module soursop.sssampling) compute_pdf() (soursop.sssampling.SamplingQuality method) compute_random_coil_chemical_shifts() (in module soursop.ssnmr) compute_series_of_histograms_along_axis() (soursop.sssampling.SamplingQuality method)

F

fractional_helicity() (soursop.sssampling.SamplingQuality method)

G

gather_phi_reference_dihedrals() (soursop.sssampling.PrecomputedDihedralInterface method) gather_psi_reference_dihedrals() (soursop.sssampling.PrecomputedDihedralInterface method) generate_PRE_profile() (soursop.sspre.SSPRE method) get_all_SASA() (soursop.ssprotein.SSProtein method) get_all_to_all_2d_trj_comparison() (soursop.sssampling.SamplingQuality method) get_all_to_all_trj_comparisons() (soursop.sssampling.SamplingQuality method) get_amino_acid_sequence() (soursop.ssprotein.SSProtein method) get_angle_decay() (soursop.ssprotein.SSProtein method) get_angles() (soursop.ssprotein.SSProtein method) get_asphericity() (soursop.ssprotein.SSProtein method) get_CA_index() (soursop.ssprotein.SSProtein method) get_clusters() (soursop.ssprotein.SSProtein method) get_contact_map() (soursop.ssprotein.SSProtein method) get_D_vector() (soursop.ssprotein.SSProtein method) get_degree_bins() (soursop.sssampling.SamplingQuality method) get_dihedral_mutual_information() (soursop.ssprotein.SSProtein method) get_distance_map() (soursop.ssprotein.SSProtein method) get_end_to_end_distance() (soursop.ssprotein.SSProtein method) get_end_to_end_vs_rg_correlation() (soursop.ssprotein.SSProtein method) get_gyration_tensor() (soursop.ssprotein.SSProtein method) get_hydrodynamic_radius() (soursop.ssprotein.SSProtein method) get_inter_residue_atomic_distance() (soursop.ssprotein.SSProtein method) get_inter_residue_COM_distance() (soursop.ssprotein.SSProtein method) get_inter_residue_COM_vector() (soursop.ssprotein.SSProtein method) get_interchain_contact_map() (soursop.sstrajectory.SSTrajectory method)

get_interchain_distance() (soursop.sstrajectory.SSTrajectory method) get_interchain_distance_map() (soursop.sstrajectory.SSTrajectory method) get_internal_scaling() (soursop.ssprotein.SSProtein method) get_internal_scaling_RMS() (soursop.ssprotein.SSProtein method) get_local_collapse() (soursop.ssprotein.SSProtein method) get_local_heterogeneity() (soursop.ssprotein.SSProtein method) get_local_to_global_correlation() (soursop.ssprotein.SSProtein method) get_multiple_CA_index() (soursop.ssprotein.SSProtein method) get_overall_asphericity() (soursop.sstrajectory.SSTrajectory method) get_overall_hydrodynamic_radius() (soursop.sstrajectory.SSTrajectory method) get_overall_radius_of_gyration() (soursop.sstrajectory.SSTrajectory method) get_overlap_concentration() (soursop.ssprotein.SSProtein method) get_polymer_scaled_distance_map() (soursop.ssprotein.SSProtein method) get_Q() (soursop.ssprotein.SSProtein method) get_radius_of_gyration() (soursop.ssprotein.SSProtein method) get_regional_SASA() (soursop.ssprotein.SSProtein method) get_residue_atom_indices() (soursop.ssprotein.SSProtein method) get_residue_COM() (soursop.ssprotein.SSProtein method) get_residue_mass() (soursop.ssprotein.SSProtein method) get_RMSD() (soursop.ssprotein.SSProtein method) get_scaling_exponent() (soursop.ssprotein.SSProtein method) get_secondary_structure_BBSEG() (soursop.ssprotein.SSProtein method) get_secondary_structure_DSSP() (soursop.ssprotein.SSProtein method) get_sidechain_alignment_angle() (soursop.ssprotein.SSProtein method) get_site_accessibility() (soursop.ssprotein.SSProtein method) get_t() (soursop.ssprotein.SSProtein method)

H

hellinger_distance() (in module soursop.sssampling)

hellingers_distances() (soursop.sssampling.SamplingQuality method)

L

length (soursop.ssprotein.SSProtein attribute) (soursop.sstrajectory.SSTrajectory attribute)

M

module soursop.ssnmr soursop.sssampling

N

n_frames (soursop.ssprotein.SSProtein attribute) (soursop.sstrajectory.SSTrajectory attribute)

n_proteins (soursop.sstrajectory.SSTrajectory attribute) n_residues (soursop.ssprotein.SSProtein attribute) ncap (soursop.ssprotein.SSProtein attribute)

P

PrecomputedDihedralInterface (class in soursop.sssampling)

print_residues() (soursop.ssprotein.SSProtein method)

Q

quality_plot() (soursop.sssampling.SamplingQuality method)

R

ref_pdfs() (soursop.sssampling.SamplingQuality method) rel_entropy() (in module soursop.sssampling)

reset_cache() (soursop.ssprotein.SSProtein method) resid_with_CA (soursop.ssprotein.SSProtein attribute) residue_index_list (soursop.ssprotein.SSProtein attribute)

S

sample_angles() (soursop.sssampling.PrecomputedDihedralInterface method) SamplingQuality (class in soursop.sssampling) soursop.ssnmr module

soursop.sssampling module SSPRE (class in soursop.sspre) SSProtein (class in soursop.ssprotein) SSTrajectory (class in soursop.sstrajectory)

T

trj_pdfs() (soursop.sssampling.SamplingQuality method)

V

validate_weights() (in module soursop.ssutils)

W

weighted_corr() (in module soursop.ssutils) weighted_mean() (in module soursop.ssutils)

weighted_rms() (in module soursop.ssutils) weighted_std() (in module soursop.ssutils)