# Generated by roxygen2: do not edit by hand

S3method(base::as.data.frame,IterableFragments)
S3method(base::as.matrix,IterableMatrix)
S3method(svds,IterableMatrix)
S3method(svds,default)
export("all_matrix_inputs<-")
export("cellNames<-")
export("chrNames<-")
export(add_cols)
export(add_rows)
export(all_matrix_inputs)
export(apply_by_col)
export(apply_by_row)
export(binarize)
export(call_macs_peaks)
export(call_peaks_macs)
export(call_peaks_tile)
export(canonical_gene_symbol)
export(cellNames)
export(checksum)
export(chrNames)
export(cluster_graph_leiden)
export(cluster_graph_louvain)
export(cluster_graph_seurat)
export(colMaxs)
export(colMaxs.IterableMatrix)
export(colMaxs.default)
export(colMeans)
export(colQuantiles)
export(colQuantiles.IterableMatrix)
export(colQuantiles.default)
export(colSums)
export(colVars)
export(colVars.IterableMatrix)
export(colVars.default)
export(collect_features)
export(continuous_palette)
export(convert_matrix_type)
export(convert_to_fragments)
export(discrete_palette)
export(draw_trackplot_grid)
export(expm1_slow)
export(extend_ranges)
export(footprint)
export(gene_region)
export(gene_score_archr)
export(gene_score_tiles_archr)
export(gene_score_weights_archr)
export(get_trackplot_height)
export(import_matrix_market)
export(import_matrix_market_10x)
export(knn_annoy)
export(knn_hnsw)
export(knn_to_geodesic_graph)
export(knn_to_snn_graph)
export(log1p_slow)
export(marker_features)
export(match_gene_symbol)
export(matrix_stats)
export(matrix_type)
export(merge_cells)
export(min_by_col)
export(min_by_row)
export(min_scalar)
export(multiply_cols)
export(multiply_rows)
export(nucleosome_counts)
export(open_fragments_10x)
export(open_fragments_dir)
export(open_fragments_hdf5)
export(open_matrix_10x_hdf5)
export(open_matrix_anndata_hdf5)
export(open_matrix_dir)
export(open_matrix_hdf5)
export(order_ranges)
export(peak_matrix)
export(plot_dot)
export(plot_embedding)
export(plot_fragment_length)
export(plot_read_count_knee)
export(plot_tf_footprint)
export(plot_tss_profile)
export(plot_tss_scatter)
export(prefix_cell_names)
export(pseudobulk_matrix)
export(qc_scATAC)
export(range_distance_to_nearest)
export(read_bed)
export(read_encode_blacklist)
export(read_gencode_genes)
export(read_gencode_transcripts)
export(read_gtf)
export(read_ucsc_chrom_sizes)
export(regress_out)
export(rotate_x_labels)
export(rowMaxs)
export(rowMaxs.IterableMatrix)
export(rowMaxs.default)
export(rowMeans)
export(rowQuantiles)
export(rowQuantiles.IterableMatrix)
export(rowQuantiles.default)
export(rowSums)
export(rowVars)
export(rowVars.IterableMatrix)
export(rowVars.default)
export(sctransform_pearson)
export(select_cells)
export(select_chromosomes)
export(select_regions)
export(set_trackplot_height)
export(set_trackplot_label)
export(shift_fragments)
export(storage_order)
export(subset_lengths)
export(svds)
export(tile_matrix)
export(trackplot_bulk)
export(trackplot_combine)
export(trackplot_coverage)
export(trackplot_gene)
export(trackplot_genome_annotation)
export(trackplot_loop)
export(trackplot_scalebar)
export(transpose_storage_order)
export(write_fragments_10x)
export(write_fragments_dir)
export(write_fragments_hdf5)
export(write_fragments_memory)
export(write_insertion_bedgraph)
export(write_matrix_10x_hdf5)
export(write_matrix_anndata_hdf5)
export(write_matrix_dir)
export(write_matrix_hdf5)
export(write_matrix_memory)
exportMethods(as.data.frame)
exportMethods(as.matrix)
exportMethods(t)
importClassesFrom(Matrix,dgCMatrix)
importFrom(Matrix,colMeans)
importFrom(Matrix,colSums)
importFrom(Matrix,rowMeans)
importFrom(Matrix,rowSums)
importFrom(Rcpp,sourceCpp)
importFrom(magrittr,"%>%")
importFrom(methods,.hasSlot)
importFrom(methods,Arith)
importFrom(methods,Compare)
importFrom(methods,Math)
importFrom(methods,Math2)
importFrom(methods,as)
importFrom(methods,callNextMethod)
importFrom(methods,cbind2)
importFrom(methods,is)
importFrom(methods,new)
importFrom(methods,rbind2)
importFrom(methods,setAs)
importFrom(methods,setClass)
importFrom(methods,setGeneric)
importFrom(methods,setMethod)
importFrom(methods,show)
importMethodsFrom(Matrix,colMeans)
importMethodsFrom(Matrix,colSums)
importMethodsFrom(Matrix,rowMeans)
importMethodsFrom(Matrix,rowSums)
useDynLib(BPCells, .registration = TRUE)
