Index

_

__init__() (lammpskit.ecellmodel.filament_layer_analysis.MockOvitoModifiers method) (lammpskit.plotting.DualAxisPlotConfig method), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig method) (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig method) (lammpskit.plotting.TimeSeriesPlotConfig method), [1]

A

alpha (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

analyze_clusters() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis)

C

calculate_atomic_distributions() (in module lammpskit.ecellmodel.data_processing) calculate_charge_distributions() (in module lammpskit.ecellmodel.data_processing) calculate_frequency_label() (in module lammpskit.plotting.timeseries_plots)

calculate_mean_std_label() (in module lammpskit.plotting.timeseries_plots) calculate_z_bins_setup() (in module lammpskit.ecellmodel.data_processing) create_dual_axis_plot() (in module lammpskit.plotting.timeseries_plots) create_time_series_plot() (in module lammpskit.plotting.timeseries_plots)

D

DualAxisPlotConfig (class in lammpskit.plotting) (class in lammpskit.plotting.timeseries_plots)

E

extract_element_label_from_filename() (in module lammpskit.ecellmodel.data_processing)

F

fontsize_labels (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1] fontsize_legend (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1] fontsize_ticks (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

fontsize_title (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1] format (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

I

import_file() (in module lammpskit.ecellmodel.filament_layer_analysis) include_line (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

include_scatter (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

L

lammpskit module, [1] lammpskit.config module lammpskit.ecellmodel.data_processing module lammpskit.ecellmodel.filament_layer_analysis module lammpskit.io.lammps_readers module

lammpskit.plotting.timeseries_plots module lammpskit.plotting.utils module legend_framealpha (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] linewidth (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

M

main() (in module lammpskit.ecellmodel.filament_layer_analysis) marker (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1] markersize (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.TimeSeriesPlotConfig attribute), [1] (lammpskit.plotting.TimeSeriesPlotConfig attribute), [1]

MockOvitoModifiers (class in lammpskit.ecellmodel.filament_layer_analysis) module lammpskit, [1] lammpskit.config lammpskit.ecellmodel.data_processing lammpskit.ecellmodel.filament_layer_analysis lammpskit.io.lammps_readers lammpskit.plotting.timeseries_plots lammpskit.plotting.utils

P

plot_atomic_charge_distribution() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis) plot_atomic_distribution() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis) plot_displacement_comparison() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis)

plot_displacement_timeseries() (in module lammpskit.ecellmodel.filament_layer_analysis) plot_multiple_cases() (in module lammpskit.plotting.utils) primary_color (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] primary_legend_loc (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1]

R

read_coordinates() (in module lammpskit.io) (in module lammpskit.io.lammps_readers) read_displacement_data() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis)

read_structure_info() (in module lammpskit.io) (in module lammpskit.io.lammps_readers)

S

save_and_close_figure() (in module lammpskit.plotting.timeseries_plots) secondary_color (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1]

secondary_legend_loc (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] select_atom_types_from_coordinates() (in module lammpskit.ecellmodel.data_processing)

T

tight_layout (lammpskit.plotting.DualAxisPlotConfig attribute), [1] (lammpskit.plotting.timeseries_plots.DualAxisPlotConfig attribute), [1] TimeSeriesPlotConfig (class in lammpskit.plotting) (class in lammpskit.plotting.timeseries_plots)

track_filament_evolution() (in module lammpskit.ecellmodel) (in module lammpskit.ecellmodel.filament_layer_analysis)

V

validate_chunks_parameter() (in module lammpskit.config) validate_cluster_parameters() (in module lammpskit.config) validate_dataindex() (in module lammpskit.config)

validate_file_list() (in module lammpskit.config) validate_filepath() (in module lammpskit.config) validate_loop_parameters() (in module lammpskit.config)