Man pages for ropensci/tracerer
Tracer from R
| calc_act | Calculate the auto-correlation time, alternative... |
| calc_act_cpp | Calculate the auto correlation time from... |
| calc_act_r | Calculate the auto-correlation time using only R. Consider... |
| calc_ess | Calculates the Effective Sample Size |
| calc_esses | Calculates the Effective Sample Sizes from a parsed BEAST2... |
| calc_geom_mean | Calculate the geometric mean |
| calc_hpd_interval | Calculate the Highest Probability Density of an MCMC trace... |
| calc_mode | Calculate the mode of values If the distribution is bi or... |
| calc_stderr_mean | Calculate the standard error of the mean |
| calc_std_error_of_mean_cpp | Calculates the standard error of the mean |
| calc_summary_stats | Calculates the Effective Sample Sizes of one estimated... |
| calc_summary_stats_trace | Calculates the Effective Sample Sizes of one estimated... |
| calc_summary_stats_traces | Calculates the Effective Sample Sizes of the traces of... |
| check_trace | Check if the trace is a valid. Will stop if not |
| count_trees_in_file | Count the number of trees in a '.trees' file |
| cs_std_dev | Calculate the corrected sample standard deviation. |
| default_params_doc | Documentation of general function arguments. This function... |
| extract_operators_lines | Extract the JSON lines out of a '.xml.state' with the... |
| get_tracerer_path | Get the full path of a file in the 'inst/extdata' folder |
| get_tracerer_paths | Get the full paths of files in the 'inst/extdata' folder |
| get_tracerer_tempfilename | Get a temporary filename |
| is_posterior | Determines if the input is a BEAST2 posterior |
| is_trees_file | Measure if a file a valid BEAST2 '.trees' file |
| is_trees_posterior | Determines if the input is a BEAST2 posterior, as parsed by... |
| parse_beast_log | Deprecated function to parse a BEAST2 '.log' output file. Use... |
| parse_beast_output_files | Parse all BEAST2 output files |
| parse_beast_posterior | Parses BEAST2 output files to a posterior |
| parse_beast_state_operators | Parses a BEAST2 state '.xml.state' output file to get only... |
| parse_beast_tracelog_file | Parses a BEAST2 tracelog '.log' output file |
| parse_beast_trees | Parses a BEAST2 .trees output file |
| remove_burn_in | Removed the burn-in from a trace |
| remove_burn_ins | Removed the burn-ins from a data frame |
| save_beast_estimates | Save the BEAST2 estimates as a BEAST2 '.log' file. There will... |
| save_beast_trees | Save the BEAST2 trees as a BEAST2 '.log' file. There will be... |
| tracerer-package | 'tracerer': A package to parse BEAST2 output files. |
