NAMESPACE

# Generated by roxygen2: do not edit by hand

export(Chromatin_enrichment)
export(MSigDB_enrichment)
export(addCrom15Columns)
export(addDhsColumns)
export(addGroupColumns)
export(addPhantomSummary)
export(adjust_data)
export(clean_NA_from_data)
export(create_GWAMA_files)
export(descriptives_CpGs)
export(exclude_CpGs)
export(filterCpGs)
export(filterLowRepresentedCpGsinCohort)
export(findOverlapValues)
export(generate_hapmap_file)
export(getAllChromStateOR)
export(getAllChromStateRegressions)
export(getAllFisherTest)
export(getAllHypergeometricTest)
export(getAllRelativeIslandOR)
export(getBinaryClassificationYesNo)
export(getChromStateOR)
export(getChromStateRegression)
export(getEnrichGenomicRanges)
export(getEntrezIdfromSymbol)
export(getFisherTest)
export(getHyperHypo)
export(getHypergeometricTest)
export(getPMDGenomicRanges)
export(getRelativeIslanOR)
export(getUniqueGenes)
export(getUniqueValues)
export(get_annotation_unlisted_CpGs)
export(get_annotattions)
export(get_consensusPdb_OverRepresentation)
export(get_descriptives_GenePosition)
export(get_descriptives_RelativetoIsland)
export(get_descriptives_postGWAMA)
export(get_lambda)
export(get_low_presence_CpGs)
export(geteQTMEnrichment)
export(missMethyl_enrichment)
export(plot_ChromStates)
export(plot_Depletion_Enrichment)
export(plot_ForestPlot)
export(plot_GenePosition)
export(plot_OR)
export(plot_ProportionHyperGeometrics)
export(plot_ProportionStatesFP)
export(plot_RelativetoIsland)
export(plot_Summary)
export(plot_TestEnrichDepleit_Collapsed)
export(plot_TestResults_Collapsed)
export(plot_TestResults_Collapsed_Positions)
export(plot_betas_boxplot)
export(plot_chromosomestate)
export(plot_distribution)
export(plot_missMethyl_Summary)
export(plot_precisionp)
export(plot_precissionp)
export(plot_venndiagram)
export(plot_volcano)
export(printTableEnrich)
export(remove_duplicate_CpGs)
export(restrict_CpGs_to_artype)
export(run_GWAMA_MetaAnalysis)
export(simplifyDuplicates)
export(summary_HyperGeometrics_Table)
export(summary_States_FP_Table)
export(test_duplicate_CpGs)
export(write_QCData)
import(IlluminaHumanMethylation450kanno.ilmn12.hg19)
import(IlluminaHumanMethylationEPICanno.ilm10b4.hg19)
import(RColorBrewer)
import(VennDiagram)
import(dplyr)
import(ggplot2)
import(ggsignif)
import(missMethyl)
import(org.Hs.eg.db)
import(rasterpdf)
import(stringr)
import(tidyverse)
import(tools)
importFrom(AnnotationDbi,select)
importFrom(brgeEnrich,cpdbOverRepresentationAnalysis)
importFrom(data.table,like)
importFrom(meta,metagen)
importFrom(plyr,rbind.fill)
importFrom(reshape2,melt)
importFrom(stringr,str_replace)