Man pages for richelbilderbeek/rbeast2
Control 'BEAST2'
| babette-package | babette: A package for Bayesian phylogenetics. |
| bbt_continue | Continue a BEAST2 run |
| bbt_delete_temp_files | Delete all the temporary files created by bbt_run_from_model |
| bbt_run | Run BEAST2 |
| bbt_run_from_model | Run BEAST2 |
| bbt_self_test | Do a self test to verify babette that works correctly. |
| check_beast2_pkgs | Checks if 'bbt_run' has the 'BEAST2' packages needed to... |
| create_test_bbt_run_output | Get an example output of 'bbt_run' or 'bbt_run_from_model'. |
| create_test_ns_output | Create NS testing output |
| default_params_doc | This function does nothing. It is intended to inherit is... |
| get_alignment_ids_from_xml | Get the alignment IDs from one or more 'BEAST2' XML input... |
| get_babette_path | Get the full path of a file in the 'inst/extdata' folder |
| get_babette_paths | Get the full paths of files in the 'inst/extdata' folder |
| parse_beast2_output | Process the 'BEAST2' output dependent on 'BEAST2' package... |
| parse_beast2_output_to_ns | Parse BEAST2 NS output |
| plot_densitree | Draw multiple trees on top of one another. |
| prepare_file_creation | Internal function to prepare for 'BEAST2' creating files |
| update_babette | Update all babette dependencies, by installing their latest... |
