benj/NAMESPACE at main · KellisLab/benj · GitHub

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# Generated by roxygen2: do not edit by hand

export(.summarizeJASPARMotifs)
export(autoHeatmap)
export(bed.dump)
export(bed.slurp)
export(bulk_aggregate)
export(bulk_aggregate_star)
export(calc_binomial_CI)
export(calculate_qc_metrics)
export(chisq_transform)
export(colorRamp2)
export(colors)
export(convert_pvalue_to_star)
export(createGeneAnnotationGFF)
export(deg)
export(deg.deseq2)
export(deg.dysregulation)
export(deg.edger)
export(deg.extract.covariates.from.design)
export(deg.filter.design)
export(deg.filter.outliers)
export(deg.limma)
export(deg.mast)
export(deg.nebula)
export(deg.prepare)
export(deg.ruvseq)
export(deg.wilcoxon)
export(diag.mat3)
export(download_arc)
export(dump.excel)
export(enrichALL)
export(enrichDO)
export(enrichGO)
export(enrichKEGG)
export(enrichMKEGG)
export(enrichReactome)
export(enrichWP)
export(enrich_overlap_custom)
export(enrich_se)
export(extractMarkerPeaks)
export(get_cache_loader)
export(gff3_symbols)
export(gseGO)
export(htSortMatrix)
export(ht_asterisks)
export(ht_boxplot)
export(ht_text)
export(ht_triangle_split)
export(installExtraPackages)
export(load.persample.excel)
export(loadAnnotationFromRNA)
export(load_cached)
export(load_multiome_barcodes)
export(make_aggregation_table)
export(make_average)
export(make_pseudobulk)
export(make_tiles)
export(motif_overlap)
export(msub)
export(order.tsp)
export(parse.range)
export(pbviolin)
export(peak_annotation)
export(pivot)
export(plotPCA)
export(promoter_enrichment)
export(qclip)
export(readLdscMatrix)
export(read_h5ad)
export(read_h5ad_obs)
export(read_h5ad_parallel)
export(read_h5ad_var)
export(read_star)
export(repel_text)
export(reverseComplement)
export(run.great)
export(saveGGplot)
export(saveHeatmap)
export(se_concat)
export(se_gene_ranges)
export(se_log1p)
export(se_make_pseudobulk)
export(se_module_score)
export(se_normalize_total)
export(se_prcomp)
export(se_tmm)
export(se_to_cellranger_h5)
export(set_ht_opt)
export(sra_from_geo)
export(tss)
export(var_names_make_unique)
export(vclip)
export(volcano)