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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(as_AssayObject)
export(as_GiottoObject)
export(as_Reference)
export(as_SingleCellExperiment)
export(as_SpatialRNA)
export(as_spatEnrObj)
export(calculate_giotto_spatial_correlation_cell_type)
export(calculate_nmf_gse)
export(calculate_spatial_correlation)
export(cellphone_for_seurat)
export(classify_cell_type_regions)
export(cli_check_file_list)
export(cli_check_lib_ids)
export(cluster_bayesspace)
export(cluster_integrated)
export(cluster_nmf)
export(cluster_prediction_strength)
export(cluster_reference)
export(cluster_sc3)
export(cluster_spatial)
export(combine_assayobjects)
export(deconvolute_simulation)
export(deconvolute_spatial)
export(enhance_bayesspace)
export(enhance_deconvolve)
export(evaluate_simulation)
export(export_nmf_loupe)
export(export_snn_loupe)
export(find_assayobject_consensus)
export(find_cluster_neighborhoods)
export(find_giotto_dwls_matrix)
export(find_markers)
export(find_nearest_neighbors)
export(find_nn_spatial)
export(find_signature_means)
export(import_cellphone)
export(import_loupe)
export(integrate_spatial)
export(normalize_spatial)
export(plot_cellphone)
export(plot_clusters)
export(plot_correlation_heatmap)
export(plot_features)
export(plot_gmt_availability)
export(plot_nmf)
export(plot_nmf_gse)
export(plot_prediction_summary)
export(plot_predictions)
export(plot_qc_read)
export(plot_sc3)
export(plot_scoloc)
export(plot_signatures)
export(plot_signatures_fake_bulk)
export(plot_signatures_nmf)
export(plot_spatially_variable)
export(plot_violin)
export(read_signatures)
export(read_spaceranger_deconvolution)
export(read_spaceranger_metrics)
export(read_spaceranger_probe_set)
export(read_spatial)
export(read_visium)
export(regex_mito)
export(regex_ribo)
export(set_idents_nmf)
export(set_idents_sc3)
export(simulate_spatial)
export(write_nmf_features)
import(Seurat)
import(ggplot2)
importFrom(AnnotationDbi,mapIds)
importFrom(Matrix,rowSums)
importFrom(Matrix,t)
importFrom(RANN,nn2)
importFrom(data.table,data.table)
importFrom(data.table,dcast)
importFrom(data.table,fread)
importFrom(data.table,melt)
importFrom(data.table,rbindlist)
importFrom(futile.logger,flog.info)
importFrom(futile.logger,flog.warn)
importFrom(ggplot2,Geom)
importFrom(ggplot2,aes)
importFrom(ggplot2,alpha)
importFrom(ggplot2,draw_key_point)
importFrom(ggplot2,ggproto)
importFrom(ggplot2,ggproto_parent)
importFrom(ggplot2,layer)
importFrom(grDevices,dev.off)
importFrom(grDevices,pdf)
importFrom(grDevices,png)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(grid,addGrob)
importFrom(grid,editGrob)
importFrom(grid,gTree)
importFrom(grid,gpar)
importFrom(grid,grobName)
importFrom(grid,polygonGrob)
importFrom(grid,unit)
importFrom(grid,viewport)
importFrom(gridExtra,marrangeGrob)
importFrom(methods,as)
importFrom(methods,is)
importFrom(methods,new)
importFrom(patchwork,wrap_plots)
importFrom(stats,chisq.test)
importFrom(stats,coef)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,fisher.test)
importFrom(stats,hclust)
importFrom(stats,heatmap)
importFrom(stats,lm)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,predict)
importFrom(stats,quantile)
importFrom(stats,var)
importFrom(stats,weighted.mean)
importFrom(tools,file_ext)
importFrom(utils,data)
importFrom(utils,head)
importFrom(utils,read.csv)
importFrom(utils,read.delim)
importFrom(utils,write.csv)
importFrom(utils,write.table)