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NAMESPACE
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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(add_res_to_merging_list)
export(bin_columns_into_quantiles)
export(bin_specificity_into_quantiles)
export(bootstrap_enrichment_test)
export(check_ewce_genelist_inputs)
export(check_percent_hits)
export(controlled_geneset_enrichment)
export(ctd_to_sce)
export(drop_uninformative_genes)
export(ewce_expression_data)
export(ewce_plot)
export(example_bootstrap_results)
export(example_transcriptome_results)
export(filter_ctd_genes)
export(filter_genes_without_1to1_homolog)
export(filter_nonorthologs)
export(fix_bad_hgnc_symbols)
export(fix_bad_mgi_symbols)
export(fix_celltype_names)
export(generate_bootstrap_plots)
export(generate_bootstrap_plots_for_transcriptome)
export(generate_celltype_data)
export(get_celltype_table)
export(list_species)
export(load_rdata)
export(merge_ctd)
export(merge_sce)
export(merge_two_expfiles)
export(merged_ewce)
export(plot_ctd)
export(sct_normalize)
export(standardise_ctd)
import(HGNChelper)
import(ewceData)
import(ggplot2)
importFrom(DelayedArray,DelayedArray)
importFrom(DelayedArray,cbind)
importFrom(DelayedArray,rbind)
importFrom(DelayedArray,rowMaxs)
importFrom(DelayedArray,rowMeans)
importFrom(DelayedArray,setAutoBPPARAM)
importFrom(Matrix,Matrix)
importFrom(Matrix,colSums)
importFrom(Matrix,rowSums)
importFrom(Matrix,t)
importFrom(RNOmni,RankNorm)
importFrom(SingleCellExperiment,SingleCellExperiment)
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assayNames)
importFrom(SummarizedExperiment,assays)
importFrom(SummarizedExperiment,colData)
importFrom(SummarizedExperiment,rowRanges)
importFrom(data.table,":=")
importFrom(data.table,.I)
importFrom(data.table,.N)
importFrom(data.table,as.data.table)
importFrom(data.table,data.table)
importFrom(data.table,rbindlist)
importFrom(data.table,setorderv)
importFrom(dplyr,arrange)
importFrom(dplyr,desc)
importFrom(dplyr,group_by)
importFrom(dplyr,mutate)
importFrom(dplyr,slice_max)
importFrom(ewceData,ensembl_transcript_lengths_GCcontent)
importFrom(limma,eBayes)
importFrom(limma,lmFit)
importFrom(methods,as)
importFrom(methods,is)
importFrom(methods,show)
importFrom(orthogene,convert_orthologs)
importFrom(orthogene,create_background)
importFrom(orthogene,map_genes)
importFrom(orthogene,map_orthologs)
importFrom(orthogene,map_species)
importFrom(parallel,detectCores)
importFrom(parallel,mclapply)
importFrom(reshape2,melt)
importFrom(stats,aggregate)
importFrom(stats,dist)
importFrom(stats,formula)
importFrom(stats,hclust)
importFrom(stats,model.matrix)
importFrom(stats,p.adjust)
importFrom(stats,quantile)
importFrom(stats,sd)
importFrom(stringr,str_to_sentence)
importFrom(utils,capture.output)
importFrom(utils,packageVersion)
importFrom(utils,read.csv)