Man pages for GeRnika
Simulation, Visualization and Comparison of Tumor Evolution Data
| add_noise | Add noise to the VAF values in an F matrix |
| B_mats | A set of 10 trios of B matrices for experimenting with the... |
| B_to_phylotree | Create a 'Phylotree' object from a 'B' matrix. |
| combine_trees | Get consensus tree between two phylogenetic trees |
| create_B | Create tumor phylogenetic tree topology |
| create_F | Calculate the variant allele frequency (VAF) values in a set... |
| create_instance | Create a tumor phylogenetic tree instance |
| create_phylotree | Create a 'Phylotree' object |
| create_U | Calculate tumor clone frequencies in samples |
| equals | Check if two phylogenetic trees are equal |
| find_common_subtrees | Find the set of common subtrees between two phylogenetic... |
| palettes | Palettes for the methods of 'GeRnika' |
| Phylotree-class | S4 class to represent phylogenetic trees. |
| plot | Plot a Phylotree object. |
| plot_proportions | Plot a phylogenetic tree with proportional node sizes and... |
