Man pages for T-Heide/MLLLP
Maximum Likelihood Assignment of Low-Pass Samples to Trees
| add_lowpass_sampled | MLE assignment of (low-depth) samples to a tree |
| example_lp_data | Simulated low-pass WGS dataset for MLLPT |
| get_mutation_ids_per_edge | Internal function used to get mutation ids for each edge of... |
| load_genotyping_file | Function to load genotyping data from a file |
| plot_lp_loglik | Plot showing log-likelihood of all possible edges. |
| plot_lp_loglik_edge | Plot showing log-likelihood of fraction mutated from most... |
| plot_lp_position_edge | Plot showing distribution of edge positions during... |
| plot_sample_data | Plot showing ML estimate of sample parameters. |
| plot_tree | A internal function used for the plotting of trees |
| plot_tree_and_cn_data | Plot showing tree and CNA data site-by-site. |
| reexports | Objects exported from other packages |
| remove_root_tip | Internal function that removes the reference tip from a tree |
| set_lp_tiplength | Scale edge length of added LP samples for plotting |
