best_model |
Best model |
best_model.elastic_net_var_select |
Best model from elastic net variable selection |
bootstrap_var_select |
Bootstrap variable selection (for IMLEGIT) |
elastic_net_var_select |
Elastic net for variable selection in IMLEGIT model |
example_2way |
Simulated example of a 2 way interaction GxE model. |
example_2way_lme4 |
Simulated example of a 3 way interaction GxExZ model |
example_3way |
Simulated example of a 3 way interaction GxExz model |
example_3way_3latent |
Simulated example of a 3 way interaction GxExZ model |
example_with_crossover |
Simulated example of a 2 way interaction GxE model with crossover point. |
genetic_var_select |
Parallel genetic algorithm variable selection (for IMLEGIT) |
GxE_interaction_RoS |
Regions of significance using Johnson-Neyman technique |
GxE_interaction_test |
Testing of the GxE interaction |
IMLEGIT |
Independent Multiple Latent Environmental & Genetic InTeraction (IMLEGIT) model |
IMLEGIT_cv |
Cross-validation for the IMLEGIT model |
IMLEGIT_net |
Independent Multiple Latent Environmental & Genetic InTeraction (IMLEGIT) model with Elastic Net on the latent variables. Do not use on it's own, use elastic_net_var_select instead. |
IMLEGIT_to_LEGIT |
IMLEGIT to LEGIT |
LEGIT |
Latent Environmental & Genetic InTeraction (LEGIT) model |
LEGIT_cv |
Cross-validation for the LEGIT model |
LEGIT_to_IMLEGIT |
LEGIT to IMLEGIT |
longitudinal_folds |
Longitudinal folds |
nes_var_select |
Parallel natural evolutionary variable selection assuming bernouilli distribution (for IMLEGIT) |
plot.elastic_net_var_select |
Plot function for the output of elastic_net_var_select |
plot.LEGIT |
Plot |
predict.IMLEGIT |
Predictions of IMLEGIT fits |
predict.LEGIT |
Predictions of LEGIT fits |
r1nes_var_select |
Parallel natural evolutionary variable selection assuming multivariate normal search distribution with a simple covariance matrix parametrization (for IMLEGIT) |
rGE |
Gene-Environment correlation estimation and testing |
rGE.IMLEGIT |
Gene-Environment correlation estimation and testing of IMLEGIT models |
rGE.LEGIT |
Gene-Environment correlation estimation and testing of LEGIT models |
stepwise_search |
Stepwise search for the best subset of genetic variants or environments with the LEGIT model |
stepwise_search_IM |
Stepwise search for the best subset of elements in the latent variables with the IMLEGIT model |
summary.elastic_net_var_select |
Summary function for the output of elastic_net_var_select |
summary.IMLEGIT |
Summarizing IMLEGIT fits |
summary.LEGIT |
Summarizing LEGIT fits |