NAMESPACE

# Generated by roxygen2: do not edit by hand

export("%>%")
export(as_anndata)
export(as_dyno)
export(as_list)
export(as_sce)
export(as_seurat)
export(backbone)
export(backbone_bifurcating)
export(backbone_bifurcating_converging)
export(backbone_bifurcating_cycle)
export(backbone_bifurcating_loop)
export(backbone_binary_tree)
export(backbone_branching)
export(backbone_consecutive_bifurcating)
export(backbone_converging)
export(backbone_cycle)
export(backbone_cycle_simple)
export(backbone_disconnected)
export(backbone_linear)
export(backbone_linear_simple)
export(backbone_trifurcating)
export(bblego)
export(bblego_branching)
export(bblego_end)
export(bblego_linear)
export(bblego_start)
export(combine_models)
export(experiment_snapshot)
export(experiment_synchronised)
export(feature_network_default)
export(generate_cells)
export(generate_dataset)
export(generate_experiment)
export(generate_feature_network)
export(generate_gold_standard)
export(generate_kinetics)
export(generate_tf_network)
export(get_timings)
export(gold_standard_default)
export(initialise_model)
export(kinetics_default)
export(kinetics_noise_none)
export(kinetics_noise_simple)
export(kinetics_random_distributions)
export(list_backbones)
export(list_experiment_samplers)
export(ode_em)
export(plot_backbone_modulenet)
export(plot_backbone_statenet)
export(plot_experiment_dimred)
export(plot_feature_network)
export(plot_gold_expression)
export(plot_gold_mappings)
export(plot_gold_simulations)
export(plot_simulation_expression)
export(plot_simulations)
export(plot_summary)
export(rnorm_bounded)
export(runif_subrange)
export(simtime_from_backbone)
export(simulation_default)
export(simulation_type_knockdown)
export(simulation_type_wild_type)
export(ssa_etl)
export(ssa_exact)
export(tf_network_default)
export(wrap_dataset)
importFrom(GillespieSSA2,compile_reactions)
importFrom(GillespieSSA2,ode_em)
importFrom(GillespieSSA2,reaction)
importFrom(GillespieSSA2,ssa)
importFrom(GillespieSSA2,ssa_etl)
importFrom(GillespieSSA2,ssa_exact)
importFrom(Matrix,Matrix)
importFrom(Matrix,sparseMatrix)
importFrom(Matrix,summary)
importFrom(Matrix,t)
importFrom(assertthat,"%has_name%")
importFrom(assertthat,assert_that)
importFrom(dplyr,.data)
importFrom(dplyr,anti_join)
importFrom(dplyr,arrange)
importFrom(dplyr,bind_cols)
importFrom(dplyr,bind_rows)
importFrom(dplyr,case_when)
importFrom(dplyr,do)
importFrom(dplyr,filter)
importFrom(dplyr,first)
importFrom(dplyr,full_join)
importFrom(dplyr,group_by)
importFrom(dplyr,inner_join)
importFrom(dplyr,last)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,mutate_all)
importFrom(dplyr,mutate_at)
importFrom(dplyr,n)
importFrom(dplyr,nth)
importFrom(dplyr,pull)
importFrom(dplyr,rename)
importFrom(dplyr,row_number)
importFrom(dplyr,sample_n)
importFrom(dplyr,select)
importFrom(dplyr,slice)
importFrom(dplyr,summarise)
importFrom(dplyr,transmute)
importFrom(dplyr,ungroup)
importFrom(dplyr,vars)
importFrom(dynutils,"%all_in%")
importFrom(dynutils,"%has_names%")
importFrom(dynutils,add_class)
importFrom(dynutils,extend_with)
importFrom(dynutils,extract_row_to_list)
importFrom(dynutils,is_sparse)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,coord_equal)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_bar)
importFrom(ggplot2,geom_blank)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_path)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_step)
importFrom(ggplot2,geom_text)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggsave)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_colour_manual)
importFrom(ggplot2,scale_fill_brewer)
importFrom(ggplot2,scale_linetype_manual)
importFrom(ggplot2,scale_size_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_classic)
importFrom(ggraph,circle)
importFrom(ggraph,geom_edge_fan)
importFrom(ggraph,geom_edge_loop)
importFrom(ggraph,geom_node_circle)
importFrom(ggraph,geom_node_label)
importFrom(ggraph,geom_node_point)
importFrom(ggraph,geom_node_text)
importFrom(ggraph,ggraph)
importFrom(ggraph,scale_edge_width_continuous)
importFrom(ggraph,theme_graph)
importFrom(ggrepel,geom_text_repel)
importFrom(grDevices,rainbow)
importFrom(grid,arrow)
importFrom(grid,unit)
importFrom(igraph,E)
importFrom(igraph,V)
importFrom(igraph,graph_from_data_frame)
importFrom(igraph,layout.graphopt)
importFrom(igraph,layout_with_fr)
importFrom(igraph,page_rank)
importFrom(lmds,lmds)
importFrom(methods,as)
importFrom(methods,is)
importFrom(patchwork,plot_annotation)
importFrom(patchwork,plot_layout)
importFrom(patchwork,wrap_plots)
importFrom(pbapply,pblapply)
importFrom(pbapply,setTimerProgressBar)
importFrom(pbapply,timerProgressBar)
importFrom(purrr,"%>%")
importFrom(purrr,keep)
importFrom(purrr,map)
importFrom(purrr,map2)
importFrom(purrr,map_chr)
importFrom(purrr,map_dbl)
importFrom(purrr,map_df)
importFrom(purrr,map_int)
importFrom(purrr,pmap)
importFrom(purrr,set_names)
importFrom(rlang,"%|%")
importFrom(rlang,"%||%")
importFrom(rlang,eval_tidy)
importFrom(rlang,new_data_mask)
importFrom(stats,approx)
importFrom(stats,approxfun)
importFrom(stats,density)
importFrom(stats,pnorm)
importFrom(stats,qnorm)
importFrom(stats,quantile)
importFrom(stats,rbinom)
importFrom(stats,rmultinom)
importFrom(stats,rnorm)
importFrom(stats,runif)
importFrom(tibble,as_tibble)
importFrom(tibble,column_to_rownames)
importFrom(tibble,deframe)
importFrom(tibble,enframe)
importFrom(tibble,lst)
importFrom(tibble,tibble)
importFrom(tibble,tribble)
importFrom(tidygraph,activate)
importFrom(tidygraph,tbl_graph)
importFrom(tidyr,crossing)
importFrom(tidyr,everything)
importFrom(tidyr,gather)
importFrom(tidyr,one_of)
importFrom(tidyr,unnest)
importFrom(utils,data)
importFrom(utils,download.file)
importFrom(utils,head)
importFrom(utils,tail)
importFrom(viridis,scale_color_viridis)