API for deruncie/MegaLMM
MegaLMM
| Global functions | |
|---|---|
| %**% | Man page |
| B2_prec_BayesB_sampler | Source code |
| B2_prec_BayesC_sampler | Source code |
| B2_prec_horseshoe_sampler | Source code |
| Image | Man page Source code |
| Image2 | Source code |
| K | Man page |
| LDLt | Source code |
| Lambda_prec_ARD_sampler | Source code |
| MegaLMM_F | Source code |
| MegaLMM_add_Lambda_model | Source code |
| MegaLMM_add_trait_matrix | Source code |
| MegaLMM_control | Man page Source code |
| MegaLMM_initialize_variables | Source code |
| MegaLMM_preliminary_calculations | Source code |
| MegaLMM_priors | Man page Source code |
| SingleSite_regression_sampler_parallel | Man page Source code |
| `%**%` | Source code |
| assemble_current_state | Source code |
| assemble_matrix | Source code |
| boxplot_Bs | Source code |
| bs_binomial_model | Man page Source code |
| bs_diff | Man page Source code |
| calc_functions | Source code |
| calc_posterior_mean_Lambda | Source code |
| calc_posterior_mean_cov | Source code |
| cbind_list_withName | Source code |
| cis_eQTL_model | Man page Source code |
| clear_Posterior | Man page Source code |
| combined_model | Man page Source code |
| create_data_matrices | Man page Source code |
| drop_correlated_factors | Source code |
| estimate_memory_initialization_MegaLMM | Man page Source code |
| estimate_memory_posterior | Man page Source code |
| expand_Posterior | Source code |
| family_simulation | Source code |
| find_candidate_states | Man page Source code |
| get_MegaLMM_nthreads | Source code |
| get_factor_variance | Source code |
| get_fitted_set_c | Source code |
| get_ki | Source code |
| get_meff | Source code |
| get_omp_nthreads | Source code |
| get_posterior_FUN | Man page Source code |
| get_posterior_HPDinterval | Man page Source code |
| get_posterior_mean | Man page Source code |
| initialize_MegaLMM | Man page Source code |
| initialize_variables_MegaLMM | Man page Source code |
| load_posterior_param | Man page Source code |
| load_posterior_param_old | Man page Source code |
| load_simulation_data | Source code |
| log_p_h2s | Source code |
| make_chol_V_list | Source code |
| make_chol_ZtZ_Kinv_list | Source code |
| make_current_state | Source code |
| make_h2s_matrix | Source code |
| makepredictcall.bs_diff | Source code |
| matrix_multiply_toDense | Man page Source code |
| missing_data_model | Man page Source code |
| my_detectCores | Source code |
| new_halfSib_simulation | Source code |
| optimize_n_threads | Source code |
| parallel_Single_regression_sampler | Source code |
| parallel_block_regression_sampler | Source code |
| partial_matrix_model_sampler | Source code |
| partial_matrix_model_setup | Source code |
| partition_data_missing | Source code |
| plot.MegaLMM_state | Man page Source code |
| plot_current_state_simulation | Source code |
| plot_diagnostics | Man page Source code |
| plot_diagnostics_simulation | Source code |
| plot_diagonal_covariances | Source code |
| plot_element_wise_covariances | Source code |
| plot_factor_correlations | Source code |
| plot_factor_h2s | Source code |
| plot_fixed_effects | Source code |
| plot_posterior_simulation | Source code |
| posterior_plot | Source code |
| print.MegaLMM_state | Man page Source code |
| probe_gene_model | Source code |
| record_sample_Posterior_array | Source code |
| regression_model | Man page Source code |
| regression_sampler_parallel | Man page Source code |
| reinstall_MegaLMM | Source code |
| reload_Posterior | Man page Source code |
| remove_nuisance_parameters | Source code |
| reorder_factors | Man page Source code |
| rescale_factors_F | Source code |
| reset_Posterior | Source code |
| rstdnorm_mat | Man page Source code |
| rstdnorm_mat_f | Source code |
| sample_B2_prec_BayesB | Source code |
| sample_B2_prec_BayesC | Source code |
| sample_B2_prec_horseshoe | Source code |
| sample_Lambda_prec_ARD | Source code |
| sample_Lambda_prec_BayesC | Source code |
| sample_Lambda_prec_BayesC_onePi | Source code |
| sample_Lambda_prec_horseshoe | Source code |
| sample_MME_ZKZts_c | Source code |
| sample_MME_single_diagK | Source code |
| sample_MegaLMM | Man page Source code |
| sample_QTL_prec_ARD | Source code |
| sample_QTL_prec_horseshoe | Source code |
| sample_coefs_set_c | Source code |
| sample_factors_scores_c | Source code |
| sample_h2s | Source code |
| sample_h2s_discrete_MH_c | Source code |
| sample_latent_traits | Source code |
| sample_tau2_delta_c_Eigen_v2 | Source code |
| sample_trunc_delta_c_Eigen | Source code |
| save_posterior_chunk | Man page Source code |
| save_posterior_sample | Man page Source code |
| set_MegaLMM_nthreads | Source code |
| set_device | Source code |
| set_omp_nthreads | Source code |
| set_priors_MegaLMM | Man page Source code |
| setup_model_MegaLMM | Man page Source code |
| summarize_posterior | Source code |
| summary.MegaLMM_state | Man page Source code |
| toDense | Man page Source code |
| trace_plot | Source code |
| trace_plot_Lambda | Source code |
| trace_plot_h2s | Source code |
| traceplot_array | Man page Source code |
| voom_model | Man page Source code |
| yield_data | Man page |
| z_transform | Source code |
