Index

A | C | D | E | F | G | I | K | L | M | N | O | P | R | S | T | U | V | W | Y

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A

add_target() (cmepy.recorder.CmeRecorder method)

C

cmepy.cme_matrix (module) cmepy.domain (module) cmepy.fsp.simple_expander (module) cmepy.fsp.solver (module) cmepy.fsp.support_expander (module) cmepy.fsp.util (module) cmepy.lazy_dict (module) cmepy.lexarrayset (module) cmepy.measurement (module) cmepy.model (module) cmepy.ode_solver (module) cmepy.recorder (module) cmepy.restorable_solver (module) cmepy.solver (module) cmepy.state_enum (module) cmepy.statistics (module) cmepy.tests (module) cmepy.util (module)

CmeRecorder (class in cmepy.recorder) compress() (cmepy.statistics.Distribution method) (in module cmepy.statistics) compute_propensity() (in module cmepy.cme_matrix) consecutive_pairs() (in module cmepy.util) contains() (cmepy.state_enum.StateEnum method) covariance() (cmepy.statistics.Distribution method) (in module cmepy.statistics) create() (in module cmepy.fsp.solver) (in module cmepy.lexarrayset) (in module cmepy.model) (in module cmepy.recorder) (in module cmepy.restorable_solver) (in module cmepy.solver) (in module cmepy.state_enum) create_diff_eqs() (in module cmepy.cme_matrix) create_packing_functions() (in module cmepy.solver)

D

difference() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset) difference_update() (cmepy.lexarrayset.LexArraySet method) dimension (cmepy.statistics.Distribution attribute) display_plots() (in module cmepy.recorder)

Distribution (class in cmepy.statistics) dy_dt (cmepy.fsp.solver.FspSolver attribute) (cmepy.ode_solver.Solver attribute) (cmepy.restorable_solver.RestorableSolver attribute)

E

empty() (in module cmepy.lexarrayset) expand() (cmepy.fsp.simple_expander.SimpleExpander method) (cmepy.fsp.support_expander.SupportExpander method) ExpansionFailureError

expectation() (cmepy.statistics.Distribution method) (in module cmepy.statistics) extend() (cmepy.state_enum.StateEnum method)

F

from_dense() (cmepy.statistics.Distribution method) from_iter() (in module cmepy.domain), [1] from_mapping() (in module cmepy.domain)

from_rect() (in module cmepy.domain) FspSolver (class in cmepy.fsp.solver)

G

gen_reaction_matrices() (in module cmepy.cme_matrix) get_statistic() (cmepy.measurement.Measurement method)

grow_domain() (in module cmepy.fsp.util)

I

indices() (cmepy.state_enum.StateEnum method) indices_ext() (in module cmepy.util) intersection() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset)

intersection_update() (cmepy.lexarrayset.LexArraySet method)

K

kl_divergence() (cmepy.statistics.Distribution method) (in module cmepy.statistics)

L

LazyDict (class in cmepy.lazy_dict) LexArraySet (class in cmepy.lexarrayset) lp_distance() (cmepy.statistics.Distribution method) (in module cmepy.statistics)

lp_norm() (cmepy.statistics.Distribution method) (in module cmepy.statistics)

M

map() (cmepy.statistics.Distribution method) map_distribution() (in module cmepy.statistics) map_distribution_simple() (in module cmepy.statistics) Measurement (class in cmepy.measurement) member() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset) Model (class in cmepy.model) must_be_callable() (in module cmepy.model)

must_be_int_like() (in module cmepy.model) must_be_mapping() (in module cmepy.model) must_be_string_like() (in module cmepy.model) must_be_within_range() (in module cmepy.model) must_contain_item() (in module cmepy.model) must_have_length() (in module cmepy.model)

N

non_neg() (in module cmepy.util) non_neg_states() (in module cmepy.cme_matrix)

nonunique_member() (in module cmepy.lexarrayset)

O

optimise_csr_matrix() (in module cmepy.cme_matrix)

P

pack_distribution() (cmepy.state_enum.StateEnum method)

R

raise_error() (in module cmepy.model) reinitialise() (cmepy.state_enum.StateEnum method) RestorableSolver (class in cmepy.restorable_solver)

restore() (cmepy.restorable_solver.RestorableSolver method) restore_point_error (cmepy.restorable_solver.RestorableSolver attribute)

S

set_packing() (cmepy.ode_solver.Solver method) set_restore_point() (cmepy.restorable_solver.RestorableSolver method) shape_invariant() (in module cmepy.util) shift() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset) shift_update() (cmepy.lexarrayset.LexArraySet method) SimpleExpander (class in cmepy.fsp.simple_expander) size (cmepy.lexarrayset.LexArraySet attribute) Solver (class in cmepy.ode_solver) split() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset)

standard_deviation() (cmepy.statistics.Distribution method) StateEnum (class in cmepy.state_enum) states() (cmepy.state_enum.StateEnum method) step() (cmepy.fsp.solver.FspSolver method) (cmepy.ode_solver.Solver method) (cmepy.restorable_solver.RestorableSolver method) SupportExpander (class in cmepy.fsp.support_expander)

T

t (cmepy.fsp.solver.FspSolver attribute) (cmepy.ode_solver.Solver attribute) (cmepy.restorable_solver.RestorableSolver attribute)

to_dense() (cmepy.statistics.Distribution method) to_iter() (in module cmepy.domain)

U

union() (cmepy.lexarrayset.LexArraySet method) (in module cmepy.lexarrayset) union_update() (cmepy.lexarrayset.LexArraySet method) unique() (in module cmepy.lexarrayset)

unpack_distribution() (cmepy.state_enum.StateEnum method) update_ordering() (cmepy.state_enum.StateEnum method)

V

validate() (cmepy.model.Model method) validate_initial_state() (in module cmepy.model) validate_model() (in module cmepy.model) validate_name() (in module cmepy.model) validate_propensities() (in module cmepy.model) validate_shape() (in module cmepy.model)

validate_species_counts() (in module cmepy.model) validate_species_names() (in module cmepy.model) validate_transitions() (in module cmepy.model) variance() (cmepy.statistics.Distribution method) (in module cmepy.statistics)

W

write() (cmepy.measurement.Measurement method) (cmepy.recorder.CmeRecorder method)

Y

y (cmepy.fsp.solver.FspSolver attribute) (cmepy.ode_solver.Solver attribute) (cmepy.restorable_solver.RestorableSolver attribute)