# Generated by roxygen2: do not edit by hand

S3method(as_SingleCellExperiment,tof_tbl)
S3method(as_flowFrame,tof_tbl)
S3method(as_flowSet,tof_tbl)
S3method(as_seurat,tof_tbl)
S3method(as_tof_tbl,flowFrame)
S3method(as_tof_tbl,flowSet)
S3method(group_by,tof_tbl)
S3method(mutate,tof_tbl)
S3method(nest,grouped_tof_tbl)
S3method(nest,tof_tbl)
S3method(pivot_longer,tof_tbl)
S3method(pivot_wider,tof_tbl)
S3method(print,tof_model)
S3method(slice_sample,tof_tbl)
S3method(ungroup,grouped_tof_tbl)
S3method(unnest,tof_tbl)
export("%>%")
export(":=")
export(.data)
export(all_of)
export(any_of)
export(as_SingleCellExperiment)
export(as_flowFrame)
export(as_flowSet)
export(as_seurat)
export(as_tof_tbl)
export(contains)
export(ends_with)
export(everything)
export(last_col)
export(matches)
export(num_range)
export(rev_asinh)
export(starts_with)
export(tidytof_example_data)
export(tof_analyze_abundance)
export(tof_analyze_abundance_diffcyt)
export(tof_analyze_abundance_glmm)
export(tof_analyze_abundance_ttest)
export(tof_analyze_expression)
export(tof_analyze_expression_diffcyt)
export(tof_analyze_expression_lmm)
export(tof_analyze_expression_ttest)
export(tof_annotate_clusters)
export(tof_assess_channels)
export(tof_assess_clusters_distance)
export(tof_assess_clusters_entropy)
export(tof_assess_clusters_knn)
export(tof_assess_flow_rate)
export(tof_assess_model)
export(tof_batch_correct)
export(tof_batch_correct_quantile)
export(tof_batch_correct_rescale)
export(tof_calculate_flow_rate)
export(tof_cluster)
export(tof_cluster_ddpr)
export(tof_cluster_flowsom)
export(tof_cluster_kmeans)
export(tof_cluster_phenograph)
export(tof_create_grid)
export(tof_downsample)
export(tof_downsample_constant)
export(tof_downsample_density)
export(tof_downsample_prop)
export(tof_estimate_density)
export(tof_extract_central_tendency)
export(tof_extract_emd)
export(tof_extract_features)
export(tof_extract_jsd)
export(tof_extract_proportion)
export(tof_extract_threshold)
export(tof_find_knn)
export(tof_generate_palette)
export(tof_get_model_mixture)
export(tof_get_model_outcomes)
export(tof_get_model_penalty)
export(tof_get_model_training_data)
export(tof_get_model_type)
export(tof_get_model_x)
export(tof_get_model_y)
export(tof_get_panel)
export(tof_log_rank_test)
export(tof_make_knn_graph)
export(tof_make_roc_curve)
export(tof_metacluster)
export(tof_metacluster_consensus)
export(tof_metacluster_flowsom)
export(tof_metacluster_hierarchical)
export(tof_metacluster_kmeans)
export(tof_metacluster_phenograph)
export(tof_plot_cells_density)
export(tof_plot_cells_embedding)
export(tof_plot_cells_layout)
export(tof_plot_cells_scatter)
export(tof_plot_clusters_heatmap)
export(tof_plot_clusters_mst)
export(tof_plot_clusters_volcano)
export(tof_plot_model)
export(tof_plot_sample_features)
export(tof_plot_sample_heatmap)
export(tof_postprocess)
export(tof_predict)
export(tof_preprocess)
export(tof_read_data)
export(tof_reduce_dimensions)
export(tof_reduce_pca)
export(tof_reduce_tsne)
export(tof_reduce_umap)
export(tof_set_panel)
export(tof_spade_density)
export(tof_split_data)
export(tof_train_model)
export(tof_transform)
export(tof_upsample)
export(tof_upsample_distance)
export(tof_upsample_neighbor)
export(tof_write_data)
export(tof_write_fcs)
export(where)
import(Rcpp)
importFrom(RcppHNSW,hnsw_build)
importFrom(RcppHNSW,hnsw_search)
importFrom(doParallel,registerDoParallel)
importFrom(dplyr,"%>%")
importFrom(dplyr,across)
importFrom(dplyr,add_row)
importFrom(dplyr,all_of)
importFrom(dplyr,any_of)
importFrom(dplyr,arrange)
importFrom(dplyr,as_tibble)
importFrom(dplyr,bind_cols)
importFrom(dplyr,bind_rows)
importFrom(dplyr,case_when)
importFrom(dplyr,count)
importFrom(dplyr,everything)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,group_by_drop_default)
importFrom(dplyr,if_else)
importFrom(dplyr,lag)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,n)
importFrom(dplyr,pull)
importFrom(dplyr,relocate)
importFrom(dplyr,rename)
importFrom(dplyr,rename_with)
importFrom(dplyr,right_join)
importFrom(dplyr,select)
importFrom(dplyr,slice_max)
importFrom(dplyr,slice_min)
importFrom(dplyr,slice_sample)
importFrom(dplyr,summarize)
importFrom(dplyr,tibble)
importFrom(dplyr,transmute)
importFrom(dplyr,ungroup)
importFrom(flowCore,exprs)
importFrom(flowCore,flowFrame)
importFrom(flowCore,flowSet)
importFrom(flowCore,fsApply)
importFrom(flowCore,phenoData)
importFrom(flowCore,read.FCS)
importFrom(flowCore,sampleNames)
importFrom(flowCore,write.FCS)
importFrom(foreach,"%dopar%")
importFrom(foreach,`%do%`)
importFrom(foreach,`%dopar%`)
importFrom(foreach,foreach)
importFrom(ggplot2,aes)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,coord_equal)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_grid)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_abline)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_path)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_smooth)
importFrom(ggplot2,geom_step)
importFrom(ggplot2,geom_tile)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_fill_viridis_c)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,theme_void)
importFrom(ggplot2,vars)
importFrom(ggraph,facet_nodes)
importFrom(ggraph,geom_edge_link)
importFrom(ggraph,geom_node_point)
importFrom(ggraph,ggraph)
importFrom(glmnet,assess.glmnet)
importFrom(glmnet,confusion.glmnet)
importFrom(glmnet,glmnet)
importFrom(glmnet,roc.glmnet)
importFrom(methods,as)
importFrom(methods,is)
importFrom(methods,new)
importFrom(parallel,makeCluster)
importFrom(parallel,stopCluster)
importFrom(purrr,discard)
importFrom(purrr,is_double)
importFrom(purrr,is_function)
importFrom(purrr,is_integer)
importFrom(purrr,map)
importFrom(purrr,map2)
importFrom(purrr,map2_dbl)
importFrom(purrr,map2_lgl)
importFrom(purrr,map_dbl)
importFrom(purrr,map_if)
importFrom(purrr,map_lgl)
importFrom(purrr,pluck)
importFrom(purrr,pmap)
importFrom(purrr,walk2)
importFrom(readr,cols)
importFrom(readr,read_csv)
importFrom(readr,write_csv)
importFrom(recipes,all_numeric)
importFrom(recipes,juice)
importFrom(recipes,prep)
importFrom(recipes,recipe)
importFrom(recipes,step_pca)
importFrom(rlang,`.data`)
importFrom(rlang,`:=`)
importFrom(rlang,are_na)
importFrom(rlang,arg_match)
importFrom(rlang,arg_match0)
importFrom(rlang,as_name)
importFrom(rlang,check_installed)
importFrom(rlang,enquo)
importFrom(rlang,ensym)
importFrom(rlang,is_installed)
importFrom(rlang,quo)
importFrom(rlang,sym)
importFrom(stats,C)
importFrom(stats,as.formula)
importFrom(stats,cor)
importFrom(stats,cov)
importFrom(stats,cutree)
importFrom(stats,density)
importFrom(stats,deviance)
importFrom(stats,dist)
importFrom(stats,glm)
importFrom(stats,hclust)
importFrom(stats,kmeans)
importFrom(stats,mad)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,predict)
importFrom(stats,qt)
importFrom(stats,quantile)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stats,t.test)
importFrom(stringr,str_c)
importFrom(stringr,str_detect)
importFrom(stringr,str_extract)
importFrom(stringr,str_remove)
importFrom(stringr,str_remove_all)
importFrom(stringr,str_replace)
importFrom(survival,Surv)
importFrom(survival,survdiff)
importFrom(survival,survfit)
importFrom(tibble,enframe)
importFrom(tidygraph,as_tibble)
importFrom(tidygraph,convert)
importFrom(tidygraph,graph_modularity)
importFrom(tidygraph,group_louvain)
importFrom(tidygraph,mutate)
importFrom(tidygraph,select)
importFrom(tidygraph,tbl_graph)
importFrom(tidygraph,to_minimum_spanning_tree)
importFrom(tidyr,drop_na)
importFrom(tidyr,expand_grid)
importFrom(tidyr,nest)
importFrom(tidyr,pivot_longer)
importFrom(tidyr,pivot_wider)
importFrom(tidyr,separate)
importFrom(tidyr,unite)
importFrom(tidyr,unnest)
importFrom(tidyselect,all_of)
importFrom(tidyselect,any_of)
importFrom(tidyselect,contains)
importFrom(tidyselect,ends_with)
importFrom(tidyselect,eval_select)
importFrom(tidyselect,everything)
importFrom(tidyselect,last_col)
importFrom(tidyselect,matches)
importFrom(tidyselect,num_range)
importFrom(tidyselect,starts_with)
importFrom(tidyselect,vars_select_helpers)
importFrom(utils,capture.output)
importFrom(utils,data)
importFrom(utils,file_test)
importFrom(yardstick,roc_auc)
importFrom(yardstick,roc_curve)
useDynLib(tidytof, .registration = TRUE)
