# Generated by roxygen2: do not edit by hand

S3method(as.data.frame,transitiontrees)
S3method(as.data.frame,transitiontrees_bootstrap)
S3method(as.data.frame,transitiontrees_comparison)
S3method(as.data.frame,transitiontrees_group)
S3method(as.data.frame,transitiontrees_group_comparison)
S3method(logLik,transitiontrees)
S3method(nobs,transitiontrees)
S3method(plot,transitiontrees)
S3method(plot,transitiontrees_bootstrap)
S3method(plot,transitiontrees_comparison)
S3method(plot,transitiontrees_group)
S3method(plot,transitiontrees_group_comparison)
S3method(plot,transitiontrees_tune)
S3method(predict,transitiontrees)
S3method(print,summary.transitiontrees)
S3method(print,transitiontrees)
S3method(print,transitiontrees_bootstrap)
S3method(print,transitiontrees_comparison)
S3method(print,transitiontrees_group)
S3method(print,transitiontrees_group_comparison)
S3method(print,transitiontrees_tune)
S3method(simulate,transitiontrees)
S3method(summary,transitiontrees)
S3method(summary,transitiontrees_bootstrap)
S3method(summary,transitiontrees_group_comparison)
export(bootstrap_pathways)
export(common_pathways)
export(compare_groups)
export(compare_pruning)
export(compare_smoothing)
export(compare_trees)
export(context_tree)
export(divergent_pathways)
export(generate_sequences)
export(impute_sequences)
export(mine_contexts)
export(mine_sequences)
export(model_fit)
export(n_nodes)
export(pathway_exists)
export(perplexity)
export(plot_difference)
export(plot_distributions)
export(plot_divergence)
export(plot_pathway_resamples)
export(plot_pathways)
export(plot_predictive)
export(plot_pruning)
export(plot_trajectories)
export(prepare_input)
export(prune_tree)
export(query_pathway)
export(score_positions)
export(score_sequences)
export(sharp_pathways)
export(smooth_tree)
export(subtree)
export(tree_dependence)
export(tree_distance)
export(tree_pathways)
export(tune_tree)
import(ggplot2)
importFrom(stats,AIC)
importFrom(stats,BIC)
importFrom(stats,logLik)
importFrom(stats,nobs)
importFrom(stats,predict)
importFrom(stats,qchisq)
importFrom(stats,setNames)
importFrom(stats,simulate)
importFrom(utils,capture.output)
importFrom(utils,head)
importFrom(utils,modifyList)
importFrom(utils,tail)
