API for PLNmodels
Poisson Lognormal Models
| Global functions | |
|---|---|
| %>% | Man page |
| .check_boundaries | Source code |
| .extract_terms_zi | Source code |
| .logfactorial | Source code |
| .logfactorial_torch | Source code |
| .logit | Source code |
| .onAttach | Source code |
| .plot_network | Source code |
| .softmax | Source code |
| .xlogx | Source code |
| Networkfamily | Man page |
| PLN | Man page Source code |
| PLNLDA | Man page Source code |
| PLNLDA_param | Man page Source code |
| PLNLDAfit | Man page |
| PLNLDAfit_diagonal | Man page |
| PLNLDAfit_spherical | Man page |
| PLNPCA | Man page Source code |
| PLNPCA_param | Man page Source code |
| PLNPCAfamily | Man page |
| PLNPCAfit | Man page |
| PLN_param | Man page Source code |
| PLNfamily | Man page |
| PLNfit | Man page |
| PLNfit_diagonal | Man page |
| PLNfit_fixedcov | Man page |
| PLNfit_spherical | Man page |
| PLNmixture | Man page Source code |
| PLNmixture_param | Man page Source code |
| PLNmixturefamily | Man page |
| PLNmixturefit | Man page |
| PLNmodels | Man page |
| PLNmodels-package | Man page |
| PLNnetwork | Man page Source code |
| PLNnetwork_param | Man page Source code |
| PLNnetworkfamily | Man page |
| PLNnetworkfit | Man page |
| ZIPLN | Man page Source code |
| ZIPLN_param | Man page Source code |
| ZIPLNfit | Man page |
| ZIPLNfit_diagonal | Man page |
| ZIPLNfit_fixed | Man page |
| ZIPLNfit_sparse | Man page |
| ZIPLNfit_spherical | Man page |
| ZIPLNnetwork | Man page Source code |
| ZIPLNnetwork_param | Man page Source code |
| ZIPLNnetworkfamily | Man page |
| as_indicator | Source code |
| barents | Man page |
| calcFactorTMM | Source code |
| circle | Source code |
| coef.PLNLDAfit | Man page Source code |
| coef.PLNfit | Man page Source code |
| coef.PLNmixturefit | Man page Source code |
| coef.ZIPLNfit | Man page Source code |
| coefficient_path | Man page Source code |
| common_samples | Source code |
| compute_PLN_starting_point | Man page Source code |
| compute_offset | Man page Source code |
| cpp_test_nlopt | Source code |
| cpp_test_packing | Source code |
| create_parameters | Source code |
| edge_to_node | Source code |
| extract_model | Source code |
| extract_model_zi | Source code |
| extract_probs | Man page Source code |
| fitted.PLNfit | Man page Source code |
| fitted.PLNmixturefit | Man page Source code |
| fitted.ZIPLNfit | Man page Source code |
| g_legend | Source code |
| geom_circle | Source code |
| geom_mean | Source code |
| getBestModel | Man page Source code |
| getBestModel.Networkfamily | Man page Source code |
| getBestModel.PLNPCAfamily | Man page Source code |
| getBestModel.PLNmixturefamily | Man page Source code |
| getBestModel.PLNnetworkfamily | Man page |
| getBestModel.ZIPLNnetworkfamily | Man page |
| getModel | Man page Source code |
| getModel.Networkfamily | Man page Source code |
| getModel.PLNPCAfamily | Man page Source code |
| getModel.PLNmixturefamily | Man page Source code |
| getModel.PLNnetworkfamily | Man page |
| getModel.ZIPLNnetworkfamily | Man page |
| get_ggplot_corr | Source code |
| get_ggplot_corr_circle | Source code |
| get_ggplot_corr_square | Source code |
| get_ggplot_ind_map | Source code |
| get_sandwich_variance_B | Source code |
| isNetworkfamily | Source code |
| isPLNLDAfit | Source code |
| isPLNPCAfamily | Source code |
| isPLNPCAfit | Source code |
| isPLNfamily | Source code |
| isPLNfit | Source code |
| isPLNmixturefamily | Source code |
| isPLNmixturefit | Source code |
| isPLNnetworkfit | Source code |
| isZIPLNfit | Source code |
| isZIPLNfit_sparse | Source code |
| logLikPoisson | Source code |
| mollusk | Man page |
| nlopt_optimize | Source code |
| nlopt_optimize_diagonal | Source code |
| nlopt_optimize_fixed | Source code |
| nlopt_optimize_genetic_modeling | Source code |
| nlopt_optimize_rank | Source code |
| nlopt_optimize_spherical | Source code |
| nlopt_optimize_vestep | Source code |
| nlopt_optimize_vestep_diagonal | Source code |
| nlopt_optimize_vestep_rank | Source code |
| nlopt_optimize_vestep_spherical | Source code |
| node_pair_to_egde | Source code |
| nullModelPoisson | Source code |
| oaks | Man page |
| offset_css | Source code |
| offset_gmpr | Source code |
| offset_none | Source code |
| offset_numeric | Source code |
| offset_rle | Source code |
| offset_tmm | Source code |
| offset_tss | Source code |
| offset_wrench | Source code |
| optim_zipln_B_dense | Source code |
| optim_zipln_M | Source code |
| optim_zipln_Omega_diagonal | Source code |
| optim_zipln_Omega_full | Source code |
| optim_zipln_Omega_spherical | Source code |
| optim_zipln_R_exact | Source code |
| optim_zipln_R_var | Source code |
| optim_zipln_S | Source code |
| optim_zipln_zipar_covar | Source code |
| parameter_list_converged | Source code |
| plot.Networkfamily | Man page Source code |
| plot.PLNLDAfit | Man page Source code |
| plot.PLNPCAfamily | Man page Source code |
| plot.PLNPCAfit | Man page Source code |
| plot.PLNfamily | Man page Source code |
| plot.PLNmixturefamily | Man page Source code |
| plot.PLNmixturefit | Man page Source code |
| plot.PLNnetworkfamily | Man page |
| plot.PLNnetworkfit | Man page Source code |
| plot.ZIPLNfit_sparse | Man page Source code |
| plot.ZIPLNnetworkfamily | Man page |
| plot_matrix | Source code |
| predict.PLNLDAfit | Man page Source code |
| predict.PLNfit | Man page Source code |
| predict.PLNmixturefit | Man page Source code |
| predict.ZIPLNfit | Man page Source code |
| predict_cond | Man page Source code |
| predict_cond.PLNfit | Man page Source code |
| prepare_data | Man page Source code |
| rPLN | Man page Source code |
| sanitize_offset | Source code |
| scRNA | Man page |
| sf2nf | Source code |
| sigma.PLNfit | Man page Source code |
| sigma.PLNmixturefit | Man page Source code |
| sigma.ZIPLNfit | Man page Source code |
| species_variance | Source code |
| stability_selection | Man page Source code |
| standard_error | Man page Source code |
| standard_error.PLNPCAfit | Man page Source code |
| standard_error.PLNfit | Man page Source code |
| standard_error.PLNfit_fixedcov | Man page Source code |
| standard_error.PLNmixturefit | Man page Source code |
| standard_error.PLNnetworkfit | Man page Source code |
| status_to_message | Source code |
| trace | Source code |
| trichoptera | Man page |
| vcov.PLNfit | Man page Source code |
| zipln_vloglik | Source code |
