Index

B

BinaryPolymer (module)

C

calculate_propensities() (in module PropensityFunctions) check_mass() (in module BinaryPolymer) convert_CRS_to_npArrays() (in module InitializeFunctions) CoreClasses (module)

create_concentration_files() (in module InitializeFunctions) create_concentration_files_old() (in module InitializeFunctions) create_reaction_system() (in module InitializeFunctions) CRS (class in CoreClasses)

G

generate_all_binary_reactions() (in module BinaryPolymer) generate_random_rate_polymerization_reactions() (in module BinaryPolymer)

generate_wim_RAF() (in module BinaryPolymer) get_c_pointers() (in module InitializeFunctions)

I

InitializeFunctions (module)

O

OutputFunctions (module)

P

plot_length_distribution() (in module Plotting) plot_molecule_distribution() (in module Plotting)

plot_time_series() (in module Plotting) Plotting (module) PropensityFunctions (module)

R

Reaction (class in CoreClasses) read_concentration_files() (in module InitializeFunctions)

read_concentration_files_old() (in module InitializeFunctions) readtxt() (CoreClasses.CRS method) replicator_composition_propensity_envMutation() (in module PropensityFunctions)

S

savetxt() (CoreClasses.CRS method)

standard_propensity() (in module PropensityFunctions)

T

tidy_timeseries() (in module OutputFunctions)