sdanalysis
stable
Dynamics module
Relaxation module
Params Module
Figures module
Frame module
Util module
Read module
Molecule Module
Order Module
sdanalysis
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B
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C
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D
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E
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F
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G
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H
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I
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L
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M
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N
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O
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P
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Q
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R
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S
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T
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U
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V
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X
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Y
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Z
A
add() (sdanalysis.dynamics.Dynamics method)
(sdanalysis.dynamics.LastMolecularRelaxation method)
(sdanalysis.dynamics.MolecularRelaxation method)
(sdanalysis.dynamics.Relaxations method)
(sdanalysis.dynamics.TrackedMotion method)
add_frame() (sdanalysis.dynamics.Dynamics method)
(sdanalysis.dynamics.Relaxations method)
B
box() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
C
colour_orientation() (in module sdanalysis.figures.configuration)
compute_all() (sdanalysis.dynamics.Dynamics method)
compute_alpha() (sdanalysis.dynamics.Dynamics method)
compute_alpha_rot() (sdanalysis.dynamics.Dynamics method)
compute_displacement() (sdanalysis.dynamics.Dynamics method)
compute_displacement2() (sdanalysis.dynamics.Dynamics method)
compute_gamma() (sdanalysis.dynamics.Dynamics method)
compute_isf() (sdanalysis.dynamics.Dynamics method)
compute_mean_rotation() (sdanalysis.dynamics.Dynamics method)
compute_mfd() (sdanalysis.dynamics.Dynamics method)
compute_molecular_relaxations() (in module sdanalysis.relaxation)
compute_msd() (sdanalysis.dynamics.Dynamics method)
compute_msr() (sdanalysis.dynamics.Dynamics method)
compute_neighbours() (in module sdanalysis.order)
compute_relaxation_value() (in module sdanalysis.relaxation)
compute_relaxations() (in module sdanalysis.relaxation)
compute_rotation() (sdanalysis.dynamics.Dynamics method)
compute_rotation2() (sdanalysis.dynamics.Dynamics method)
compute_rotational_relax1() (sdanalysis.dynamics.Dynamics method)
compute_rotational_relax2() (sdanalysis.dynamics.Dynamics method)
compute_struct_relax() (sdanalysis.dynamics.Dynamics method)
compute_time_delta() (sdanalysis.dynamics.Dynamics method)
compute_voronoi_neighs() (in module sdanalysis.order)
create_freud_box() (in module sdanalysis.util)
create_ml_ordering() (in module sdanalysis.order)
create_neigh_ordering() (in module sdanalysis.order)
create_orient_ordering() (in module sdanalysis.order)
crystal() (sdanalysis.util.Variables property)
D
delta_rotation() (sdanalysis.dynamics.Dynamics property)
delta_translation() (sdanalysis.dynamics.Dynamics property)
diffusion_constant() (in module sdanalysis.relaxation)
dimensions() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
Dimer (class in sdanalysis.molecules)
Disc (class in sdanalysis.molecules)
distance() (sdanalysis.dynamics.Dynamics property)
(sdanalysis.dynamics.Relaxations property)
Dynamics (class in sdanalysis.dynamics)
E
error() (sdanalysis.relaxation.Result property)
exponential_relaxation() (in module sdanalysis.relaxation)
F
filename() (sdanalysis.params.SimulationParams method)
Frame (class in sdanalysis.frame)
frame2data() (in module sdanalysis.figures.configuration)
freud_box() (sdanalysis.frame.Frame method)
from_filename() (sdanalysis.util.Variables class method)
from_frame() (sdanalysis.dynamics.Dynamics class method)
(sdanalysis.dynamics.Relaxations class method)
G
get_filename_vars() (in module sdanalysis.util)
get_molid() (sdanalysis.dynamics.Dynamics method)
get_radii() (sdanalysis.molecules.Molecule method)
get_status() (sdanalysis.dynamics.LastMolecularRelaxation method)
(sdanalysis.dynamics.MolecularRelaxation method)
get_timediff() (sdanalysis.dynamics.Relaxations method)
get_types() (sdanalysis.molecules.Molecule method)
H
HoomdFrame (class in sdanalysis.frame)
I
image() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
infile() (sdanalysis.params.SimulationParams property)
iteration_id() (sdanalysis.util.Variables property)
L
LammpsFrame (class in sdanalysis.frame)
LastMolecularRelaxation (class in sdanalysis.dynamics)
M
max_time_relaxation() (in module sdanalysis.relaxation)
max_value_relaxation() (in module sdanalysis.relaxation)
mean() (sdanalysis.relaxation.Result property)
MolecularRelaxation (class in sdanalysis.dynamics)
Molecule (class in sdanalysis.molecules)
N
num_mols() (sdanalysis.frame.HoomdFrame property)
num_neighbours() (in module sdanalysis.order)
num_particles() (sdanalysis.molecules.Molecule property)
O
open_trajectory() (in module sdanalysis.read)
orientation() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
orientation2positions() (in module sdanalysis.util)
orientational_order() (in module sdanalysis.order)
outfile() (sdanalysis.params.SimulationParams property)
output() (sdanalysis.params.SimulationParams property)
P
parse_directory() (in module sdanalysis.util)
plot_circles() (in module sdanalysis.figures.configuration)
plot_frame() (in module sdanalysis.figures.configuration)
position() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
pressure() (sdanalysis.util.Variables property)
process_file() (in module sdanalysis.read)
Q
quaternion2z() (in module sdanalysis.util)
quaternion_angle() (in module sdanalysis.util)
quaternion_rotation() (in module sdanalysis.util)
R
rad_angle() (sdanalysis.molecules.Trimer property)
read_file() (in module sdanalysis.figures.thermodynamics)
read_gsd_trajectory() (in module sdanalysis.read)
read_lammps_trajectory() (in module sdanalysis.read)
relative_distances() (in module sdanalysis.order)
relative_orientations() (in module sdanalysis.order)
relaxation_type (sdanalysis.dynamics.MolecularRelaxation attribute)
Relaxations (class in sdanalysis.dynamics)
Result (class in sdanalysis.relaxation)
rotate_vectors() (in module sdanalysis.util)
S
sdanalysis (module)
sdanalysis.dynamics (module)
sdanalysis.figures.configuration (module)
sdanalysis.figures.thermodynamics (module)
sdanalysis.frame (module)
sdanalysis.molecules (module)
sdanalysis.order (module)
sdanalysis.params (module)
sdanalysis.read (module)
sdanalysis.relaxation (module)
sdanalysis.util (module)
series_relaxation_value() (in module sdanalysis.relaxation)
set_filename_vars() (in module sdanalysis.util)
set_mol_relax() (sdanalysis.dynamics.Relaxations method)
setup_neighbours() (in module sdanalysis.order)
SimulationParams (class in sdanalysis.params)
Sphere (class in sdanalysis.molecules)
summary() (sdanalysis.dynamics.Relaxations method)
T
temp_context() (sdanalysis.params.SimulationParams method)
temperature() (sdanalysis.util.Variables property)
threshold_relaxation() (in module sdanalysis.relaxation)
timestep() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
TrackedMotion (class in sdanalysis.dynamics)
translate_relaxation() (in module sdanalysis.relaxation)
Trimer (class in sdanalysis.molecules)
U
update_datacolumns() (in module sdanalysis.figures.thermodynamics)
update_factors() (in module sdanalysis.figures.thermodynamics)
update_file() (in module sdanalysis.figures.thermodynamics)
update_file_list() (in module sdanalysis.figures.thermodynamics)
V
Variables (class in sdanalysis.util)
X
x_position() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
Y
y_position() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
Z
z2quaternion() (in module sdanalysis.util)
z_position() (sdanalysis.frame.Frame property)
(sdanalysis.frame.HoomdFrame property)
(sdanalysis.frame.LammpsFrame property)
zero_quaternion() (in module sdanalysis.util)
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