P_example               Example genotype probability matrix
P_small                 Smaller example genotype probability matrix
annotate_tree           Find maximum lilkelihood assignment of
                        mutations on a tree
get_mut_graph           Convert a single-cell phylogeny with mutation
                        placements into a mutation graph
gtree_small             Smaller example annotated tree built from
                        P_small
ladderize               From ape; will remove once new ape version is
                        released
                        https://github.com/emmanuelparadis/ape/issues/54
mut_nodes_small         Mutation placements calculated from tree_small
                        and P_small
mut_to_tree             Transfer mutation assignment onto a single-cell
                        phylogeny
perform_nni             Maximum likelihood tree search via NNI
plot_phylo_heatmap      Plot phylogeny and mutation heatmap
run_scistree            Run the scistree workflow
score_tree              Score a tree based on maximum likelihood
to_phylo                Convert the phylogeny from tidygraph to phylo
                        object modified from R package alakazam,
                        converts a tbl_graph to a phylo object
tree_small              Smaller example tree built from P_small
tree_upgma              Example tree built using UPGMA from P_small
