Index

_

__call__() (epistasis.mapping.Orders method)

__new__() (epistasis.models.base.AbstractModel static method)

A

AbstractModel (class in epistasis.models.base) add_gpm() (epistasis.models.base.AbstractModel method) add_X() (epistasis.models.base.AbstractModel method)

aic() (in module epistasis.stats) arghandler() (in module epistasis.models.utils) assert_epistasis() (in module epistasis.mapping)

B

BaseModel (class in epistasis.models.base)

BayesianSampler (class in epistasis.sampling.bayesian) build() (epistasis.simulate.linear.LinearSimulation method)

C

chi_squared() (in module epistasis.stats) compression_ratio() (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ridge.EpistasisRidge method)

D

df (epistasis.mapping.Orders attribute)

E

encode_vectors() (in module epistasis.matrix) epistasis.mapping (module) epistasis.matrix (module) epistasis.models.base (module) epistasis.models.linear.elastic_net (module) epistasis.models.linear.lasso (module) epistasis.models.linear.ordinary (module) epistasis.models.linear.ridge (module) epistasis.models.utils (module) epistasis.pyplot.coefs (module)

epistasis.pyplot.nonlinear (module) epistasis.sampling.bayesian (module) epistasis.simulate.linear (module) epistasis.stats (module) EpistasisElasticNet (class in epistasis.models.linear.elastic_net) EpistasisLasso (class in epistasis.models.linear.lasso) EpistasisLinearRegression (class in epistasis.models.linear.ordinary) EpistasisMap (class in epistasis.mapping) EpistasisRidge (class in epistasis.models.linear.ridge) explained_variance() (in module epistasis.stats)

F

false_negative_rate() (in module epistasis.stats) false_positive_rate() (in module epistasis.stats) fit() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

fit_transform() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method) FittingError

G

generalized_r2() (in module epistasis.stats) genotype_coeffs() (in module epistasis.mapping) get_initial_walkers() (epistasis.sampling.bayesian.BayesianSampler method) get_model_matrix() (in module epistasis.matrix)

get_orders() (epistasis.mapping.EpistasisMap method) get_pandas_matrix() (in module epistasis.matrix) gmean() (in module epistasis.stats) gpm (epistasis.models.base.AbstractModel attribute)

H

hypothesis() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

hypothesis_transform() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

I

incremental_mean() (in module epistasis.stats) incremental_std() (in module epistasis.stats)

incremental_var() (in module epistasis.stats) index (epistasis.mapping.EpistasisMap attribute) (epistasis.mapping.Orders attribute)

K

key_to_site() (in module epistasis.mapping)

L

LinearSimulation (class in epistasis.simulate.linear) lnlike_of_data() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method) lnlike_transform() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

lnlikelihood() (epistasis.models.base.AbstractModel method) lnprior() (epistasis.sampling.bayesian.BayesianSampler static method) lnprob() (epistasis.sampling.bayesian.BayesianSampler static method)

M

map() (epistasis.mapping.EpistasisMap method)

model_type (epistasis.mapping.EpistasisMap attribute) mutations_to_sites() (in module epistasis.mapping)

N

n (epistasis.mapping.EpistasisMap attribute) num_of_params (epistasis.models.base.AbstractModel attribute) (epistasis.models.linear.elastic_net.EpistasisElasticNet attribute) (epistasis.models.linear.lasso.EpistasisLasso attribute) (epistasis.models.linear.ordinary.EpistasisLinearRegression attribute) (epistasis.models.linear.ridge.EpistasisRidge attribute)

O

order (epistasis.mapping.EpistasisMap attribute)

Orders (class in epistasis.mapping)

P

pearson() (in module epistasis.stats) plot_coefs() (in module epistasis.pyplot.coefs) plot_power_transform() (in module epistasis.pyplot.nonlinear) plot_scale() (in module epistasis.pyplot.nonlinear) predict() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

predict_transform() (epistasis.models.base.AbstractModel method) (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method)

R

read_dataframe() (epistasis.mapping.EpistasisMap class method)

rmsd() (in module epistasis.stats)

S

sample() (epistasis.sampling.bayesian.BayesianSampler method) score() (epistasis.models.linear.elastic_net.EpistasisElasticNet method) (epistasis.models.linear.lasso.EpistasisLasso method) (epistasis.models.linear.ordinary.EpistasisLinearRegression method) (epistasis.models.linear.ridge.EpistasisRidge method) site_to_key() (in module epistasis.mapping)

sites (epistasis.mapping.EpistasisMap attribute) (epistasis.mapping.Orders attribute) split_data() (in module epistasis.stats) split_gpm() (in module epistasis.stats) ss_residuals() (in module epistasis.stats) SubclassException

T

thetas (epistasis.models.linear.elastic_net.EpistasisElasticNet attribute) (epistasis.models.linear.lasso.EpistasisLasso attribute) (epistasis.models.linear.ordinary.EpistasisLinearRegression attribute) (epistasis.models.linear.ridge.EpistasisRidge attribute)

to_csv() (epistasis.mapping.EpistasisMap method) to_dict() (epistasis.mapping.EpistasisMap method) to_excel() (epistasis.mapping.EpistasisMap method)

U

use_sklearn() (in module epistasis.models.base)

V

values (epistasis.mapping.EpistasisMap attribute) (epistasis.mapping.Orders attribute)

X

XMatrixException