NAMESPACE

# Generated by roxygen2: do not edit by hand

S3method(merge,RCTD.objects)
export(CSIDE.population.inference)
export(Reference)
export(SpatialRNA)
export(aggregate_cell_types)
export(build.designmatrix.nonparam)
export(build.designmatrix.regions)
export(build.designmatrix.single)
export(cell_type_info_from_clusters)
export(cell_type_info_from_de)
export(cell_type_info_from_singlets)
export(choose_sigma_c)
export(convert.old.RCTD)
export(count_cell_types)
export(create.RCTD)
export(create.RCTD.noref)
export(create.RCTD.replicates)
export(create_RCTD_plots)
export(exvar.celltocell.interactions)
export(exvar.point.density)
export(fitBulk)
export(fitPixels)
export(get_cell_type_info)
export(get_de_genes)
export(get_doublet_weights)
export(get_norm_ref)
export(get_standard_errors)
export(import_weights)
export(initialize.clusters)
export(initialize.subtypes)
export(iterOptim)
export(make_all_de_plots)
export(make_de_plots_genes)
export(make_de_plots_quant)
export(make_de_plots_regions)
export(make_de_plots_replicates)
export(make_de_plots_spatial)
export(normalize_weights)
export(plot_all_cell_types)
export(plot_class)
export(plot_cond_occur)
export(plot_doub_occur_stack)
export(plot_doublets)
export(plot_doublets_type)
export(plot_gene_raw)
export(plot_gene_regions)
export(plot_gene_two_regions)
export(plot_occur_unthreshold)
export(plot_prediction_gene)
export(plot_puck_continuous)
export(plot_puck_wrapper)
export(plot_weights)
export(plot_weights_doublet)
export(plot_weights_unthreshold)
export(process_beads_batch)
export(process_data)
export(read.SpatialRNA)
export(read.VisiumSpatialRNA)
export(restrict_counts)
export(restrict_puck)
export(run.CSIDE)
export(run.CSIDE.general)
export(run.CSIDE.nonparam)
export(run.CSIDE.regions)
export(run.CSIDE.replicates)
export(run.CSIDE.single)
export(run.RCTD)
export(run.RCTD.replicates)
export(run.RICE)
export(run.RICE.subtypes)
export(save.CSIDE.replicates)
export(set_cell_types_assigned)
export(set_likelihood_vars)
export(weights_change)
export(weights_from_results)
export(write_de_summary)
exportClasses(RCTD)
exportClasses(RCTD.replicates)
exportClasses(Reference)
exportClasses(SpatialRNA)
import(Matrix)
import(doParallel)
import(foreach)
importClassesFrom(Matrix,Matrix)
importClassesFrom(Matrix,dgCMatrix)