API for phyr
Model Based Phylogenetic Analysis
| Global functions | |
|---|---|
| %nin% | Man page |
| .onLoad | Source code |
| align_comm_V | Man page Source code |
| boot_ci | Man page Source code |
| boot_ci.cor_phylo | Man page Source code |
| call_arg | Source code |
| comm_a | Man page |
| comm_b | Man page |
| communityPGLMM | Man page |
| communityPGLMM.matrix.structure | Man page Source code |
| communityPGLMM.plot.re | Man page |
| communityPGLMM.predicted.values | Man page Source code |
| communityPGLMM.profile.LRT | Man page Source code |
| communityPGLMM.show.re | Man page |
| cor_phylo | Man page Source code |
| cor_phylo_LL | Source code |
| cor_phylo_cpp | Source code |
| cov2cor_cpp | Source code |
| cp_get_row_names | Source code |
| cp_get_species | Source code |
| envi | Man page |
| extract_covariates | Source code |
| extract_meas_errors | Source code |
| extract_variates | Source code |
| f_deparse | Source code |
| family.communityPGLMM | Man page Source code |
| fitted.communityPGLMM | Man page Source code |
| fixed.effects | Man page |
| fixef | Man page |
| fixef.communityPGLMM | Man page Source code |
| get_Vphy | Source code |
| get_design_matrix | Man page Source code |
| match_comm_tree | Man page Source code |
| model.frame.communityPGLMM | Man page Source code |
| nobs.communityPGLMM | Man page Source code |
| oldfield | Man page |
| parse_conv_ranef | Source code |
| pcd | Man page Source code |
| pcd2_loop | Source code |
| pcd_pred | Man page Source code |
| pglmm | Man page Source code |
| pglmm.LL | Source code |
| pglmm.V | Source code |
| pglmm.iV.logdetV | Source code |
| pglmm_LL_cpp | Source code |
| pglmm_V | Source code |
| pglmm_compare | Man page Source code |
| pglmm_gaussian_LL_calc | Source code |
| pglmm_gaussian_LL_calc_cpp | Source code |
| pglmm_gaussian_LL_cpp | Source code |
| pglmm_gaussian_internal_cpp | Source code |
| pglmm_gaussian_predict | Source code |
| pglmm_iV_logdetV_cpp | Source code |
| pglmm_internal_cpp | Source code |
| pglmm_matrix_structure | Man page Source code |
| pglmm_plot_ranef | Man page Source code |
| pglmm_plot_re | Man page |
| pglmm_predicted_values | Man page Source code |
| pglmm_profile_LRT | Man page Source code |
| phylotree | Man page |
| plot_bayes | Man page Source code |
| plot_bayes.communityPGLMM | Man page Source code |
| plot_data | Man page Source code |
| predict.communityPGLMM | Man page Source code |
| predict_cpp | Source code |
| prep_dat_pglmm | Man page Source code |
| print.communityPGLMM | Man page Source code |
| print.cor_phylo | Man page Source code |
| print.cp_refits | Man page Source code |
| print.pglmm_compare | Man page Source code |
| process_cov_me_list | Source code |
| proper_formula | Source code |
| psc | Man page Source code |
| psd | Man page Source code |
| pse | Man page Source code |
| pse_cpp | Source code |
| psr | Man page Source code |
| psv | Man page Source code |
| psv.spp | Man page Source code |
| psv_cpp | Source code |
| random.effects | Man page |
| ranef | Man page |
| ranef.communityPGLMM | Man page Source code |
| refit_boots | Man page Source code |
| residuals.communityPGLMM | Man page Source code |
| rm_site_noobs | Man page Source code |
| rm_sp_noobs | Man page Source code |
| set_seed | Source code |
| sexp_type | Source code |
| sim_cor_phylo_variates | Source code |
| simulate.communityPGLMM | Man page Source code |
| summary.communityPGLMM | Man page Source code |
| summary.pglmm_compare | Man page Source code |
| traits | Man page |
| vcv2 | Man page Source code |
| vcv_loop | Source code |
| which2 | Source code |
