Index

_

__call__() (bayesmsd.fit.Fit.MinTarget method)

B

bar (bayesmsd.profiler.Profiler attribute) bayesmsd module bayesmsd.deco module bayesmsd.fit module bayesmsd.fitgroup module

bayesmsd.gp module bayesmsd.lib module bayesmsd.parameters module bayesmsd.profiler module best_estimate (bayesmsd.profiler.Profiler property)

C

check_point_estimate_against() (bayesmsd.profiler.Profiler method) compactify() (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method) constraint_Cpositive() (bayesmsd.fit.Fit method) constraint_dx() (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method)

constraint_logmsd() (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method) constraints (bayesmsd.fit.Fit attribute) (bayesmsd.fitgroup.FitGroup attribute) cur_param (bayesmsd.profiler.Profiler attribute)

D

d (bayesmsd.fit.Fit attribute) data (bayesmsd.fit.Fit attribute) decompactify_log() (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method)

DiscreteRouseFit (class in bayesmsd.lib) distance() (bayesmsd.parameters.Linearize.ABC method) ds_logL() (bayesmsd.gp.GP method)

E

evidence() (bayesmsd.fit.Fit method)

expand_fix_values() (bayesmsd.fit.Fit method)

F

find_bracket_point() (bayesmsd.profiler.Profiler method) find_closest_res() (bayesmsd.profiler.Profiler method) find_MCI() (bayesmsd.profiler.Profiler method) find_single_MCI() (bayesmsd.profiler.Profiler method) fit (bayesmsd.fit.Fit.MinTarget attribute) (bayesmsd.profiler.Profiler attribute) Fit (class in bayesmsd.fit) Fit.MinTarget (class in bayesmsd.fit)

FitGroup (class in bayesmsd.fitgroup) FitGroup.MinTarget (class in bayesmsd.fitgroup) fix_values (bayesmsd.fit.Fit.MinTarget attribute) fix_values_resolution_order (bayesmsd.fit.Fit.MinTarget attribute) from_linear() (bayesmsd.parameters.Linearize.ABC method) (bayesmsd.parameters.Linearize.Bounded method) (bayesmsd.parameters.Linearize.Exponential method) (bayesmsd.parameters.Linearize.Multiplicative method)

G

generate() (in module bayesmsd.gp) generate_dataset_like() (in module bayesmsd.gp)

GP (class in bayesmsd.gp) GP.BadCovarianceError

I

imaging() (in module bayesmsd.deco) improper_priors (bayesmsd.fitgroup.FitGroup attribute) independent_parameters() (bayesmsd.fit.Fit method) initial_bracket_points() (bayesmsd.profiler.Profiler method) initial_offset() (bayesmsd.fit.Fit method) (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method)

initial_params() (bayesmsd.fit.Fit method) (bayesmsd.fitgroup.FitGroup method) (bayesmsd.lib.DiscreteRouseFit method) (bayesmsd.lib.NPFit method) (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method) (bayesmsd.lib.TwoLocusRouseFit method)

J

joint_param_prefix() (bayesmsd.fitgroup.FitGroup method)

L

likelihood_significantly_greater() (bayesmsd.profiler.Profiler static method) Linearize (class in bayesmsd.parameters) Linearize.ABC (class in bayesmsd.parameters) Linearize.Bounded (class in bayesmsd.parameters) Linearize.Exponential (class in bayesmsd.parameters) Linearize.Multiplicative (class in bayesmsd.parameters) logL() (bayesmsd.gp.GP method) logprior() (bayesmsd.fit.Fit method) (bayesmsd.fitgroup.FitGroup method) (bayesmsd.lib.DiscreteRouseFit method) (bayesmsd.lib.NPFit method) (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method) (bayesmsd.lib.TwoLocusRouseFit method)

logT (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute) LR_interval (bayesmsd.profiler.Profiler attribute) LR_target (bayesmsd.profiler.Profiler attribute)

M

make_fit_param_name() (bayesmsd.fitgroup.FitGroup method) make_joint_param_name() (bayesmsd.fitgroup.FitGroup method) max_fit_runs (bayesmsd.profiler.Profiler attribute) max_penalty (bayesmsd.fit.Fit attribute) (bayesmsd.fitgroup.FitGroup attribute) max_restarts_per_parameters (bayesmsd.profiler.Profiler attribute) mean() (bayesmsd.parameters.Linearize.ABC method) method_verbosity_patch() (in module bayesmsd.deco) min_target_from_fit (bayesmsd.profiler.Profiler attribute) module bayesmsd bayesmsd.deco bayesmsd.fit bayesmsd.fitgroup bayesmsd.gp bayesmsd.lib bayesmsd.parameters bayesmsd.profiler

motion_blur_f (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute) move() (bayesmsd.parameters.Linearize.ABC method) MSD() (bayesmsd.fit.Fit method) (bayesmsd.fitgroup.FitGroup method) msd2C_fun() (in module bayesmsd.gp) MSDfun() (in module bayesmsd.deco)

N

n (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute)

NPFit (class in bayesmsd.lib) NPXFit (class in bayesmsd.lib)

O

offset (bayesmsd.fit.Fit.MinTarget attribute)

P

param (bayesmsd.parameters.Linearize.ABC attribute) param_names (bayesmsd.fit.Fit.MinTarget attribute) Parameter (class in bayesmsd.parameters) parameters (bayesmsd.fit.Fit attribute) (bayesmsd.fitgroup.FitGroup attribute) params2msdm() (bayesmsd.fit.Fit method) (bayesmsd.fitgroup.FitGroup method) (bayesmsd.lib.DiscreteRouseFit method) (bayesmsd.lib.NPFit method) (bayesmsd.lib.NPXFit method) (bayesmsd.lib.SplineFit method) (bayesmsd.lib.TwoLocusRouseFit method)

params_array2dict() (bayesmsd.fit.Fit.MinTarget method) params_dict2array() (bayesmsd.fit.Fit.MinTarget method) point_estimate (bayesmsd.profiler.Profiler attribute) prev_fit (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute) profile_likelihood() (bayesmsd.profiler.Profiler method) profile_marginalized_params() (bayesmsd.fit.Fit.MinTarget method) Profiler (class in bayesmsd.profiler) Profiler.FoundBetterPointEstimate profiling (bayesmsd.profiler.Profiler property)

R

ress (bayesmsd.profiler.Profiler attribute) restart_if_better_pe_found() (bayesmsd.profiler.Profiler method) restart_on_better_point_estimate (bayesmsd.profiler.Profiler attribute)

run() (bayesmsd.fit.Fit method) run_count (bayesmsd.profiler.Profiler attribute) run_fit() (bayesmsd.profiler.Profiler method)

S

solve_bisection() (bayesmsd.profiler.Profiler method) SplineFit (class in bayesmsd.lib) ss_order (bayesmsd.fit.Fit attribute) (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute)

suggest_linearization() (bayesmsd.parameters.Parameter method)

T

T (bayesmsd.fit.Fit attribute) to_linear() (bayesmsd.parameters.Linearize.ABC method) (bayesmsd.parameters.Linearize.Bounded method) (bayesmsd.parameters.Linearize.Exponential method) (bayesmsd.parameters.Linearize.Multiplicative method)

TwoLocusRouseFit (class in bayesmsd.lib)

U

upper_bc_type (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute)

V

verbosity (bayesmsd.fit.Fit attribute) (bayesmsd.fitgroup.FitGroup attribute) (bayesmsd.profiler.Profiler attribute)

vprint() (bayesmsd.fit.Fit method) (bayesmsd.profiler.Profiler method)

X

x_last (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute)

x_max (bayesmsd.lib.NPXFit attribute) (bayesmsd.lib.SplineFit attribute)