# Generated by roxygen2: do not edit by hand

export("%||%")
export(alphaNumeric)
export(asBigMatrix)
export(assocFilter)
export(baseName)
export(bedSizeCorrect)
export(bimCorrectTypes)
export(bin2DescFilename)
export(binPhe)
export(bmAddCol)
export(bmAttachBin)
export(bmConvertFun)
export(bmFilename)
export(bmFilepath)
export(bytesSnp)
export(chExt)
export(changeByMap)
export(charify)
export(checkFileExist)
export(cmh)
export(colClasses)
export(colCors)
export(collClear)
export(collapse)
export(collapseMat)
export(collenv)
export(connectSnpPair)
export(contrastData)
export(contrastPlot)
export(correctDesc)
export(correctTypes)
export(covarNames)
export(cytoband)
export(datToVec)
export(desc2BinFilename)
export(dir.create2)
export(dirName)
export(eprint)
export(evalFile)
export(famCorrectTypes)
export(fidIid)
export(file.create2)
export(filePath)
export(fileSize)
export(gcdhBmCreate)
export(gcdhDir)
export(gcdhPower)
export(gcdhRegion)
export(gcdhReport)
export(getHaplos)
export(getQuery)
export(getr2)
export(glm2)
export(glmIter)
export(gwasDat)
export(gwasDir)
export(gwasLog)
export(gwasOut)
export(gwasOutStem)
export(gwasR)
export(gwasRDS)
export(head2)
export(headPhe)
export(isBinary)
export(isS4Class)
export(isSQLite3)
export(isSetup)
export(isSetupRbed)
export(lagDistance)
export(lenCheck)
export(listEqual)
export(listGwasTags)
export(listTags)
export(loadGwas)
export(makePhe)
export(manhattanData)
export(manhattanPlot)
export(nIndivApprPl)
export(nIndivPl)
export(nSnpPl)
export(nonExistentFiles)
export(numVectorSQLRepr)
export(permutePhe)
export(plGwas)
export(plInfo)
export(plTrim)
export(plinkr)
export(qq)
export(qq2)
export(qqmulti)
export(randNormDat)
export(randomString)
export(randomStrings)
export(rbedInfo)
export(read.phe.table)
export(readAssoc)
export(readBed)
export(readBim)
export(readBmBin)
export(readDesc)
export(readFam)
export(readFunFactory)
export(readGwasOut)
export(readLiteral)
export(readLogistic)
export(readPhe)
export(readPlinkOut)
export(readQassoc)
export(realBedSize)
export(removeTag)
export(reprClasses)
export(rmFilesByStem)
export(runGcdh)
export(runGwas)
export(runTypeI)
export(saveDesc)
export(sendQuery)
export(setOptModel)
export(setup)
export(setupRbed)
export(shiftBed)
export(shiftedStem)
export(slurp)
export(snpPos)
export(snpRowId)
export(spit)
export(sqliteFilePl)
export(stopFormat)
export(strVectorRepr)
export(strVectorSQLRepr)
export(systemFormat)
export(tail2)
export(theoBedSize)
export(validPhe)
export(write.phe.table)
exportClasses(PlGwasC)
exportClasses(PlInfoC)
exportClasses(RbedInfoC)
exportMethods(asBigMatrix)
exportMethods(baseName)
exportMethods(dirName)
exportMethods(plGwas)
exportMethods(plInfo)
exportMethods(readBed)
exportMethods(readInfo)
import(methods)
import(rJava)
import(stats)
importFrom(RSQLite,SQLite)
importFrom(RSQLite,dbConnect)
importFrom(RSQLite,dbDisconnect)
importFrom(RSQLite,dbGetQuery)
importFrom(RSQLite,dbSendQuery)
importFrom(RSQLite,dbWriteTable)
importFrom(biganalytics,apply)
importFrom(biganalytics,colmin)
importFrom(bigmemory,attach.big.matrix)
importFrom(bigmemory,big.matrix)
importFrom(bigmemory,filebacked.big.matrix)
importFrom(collUtils,countlines)
importFrom(collUtils,getJArray)
importFrom(collUtils,rBed)
importFrom(collUtils,readcols)
importFrom(collUtils,truncateEndOfFile)
importFrom(dplyr,group_by)
importFrom(dplyr,id)
importFrom(dplyr,left_join)
importFrom(dplyr,summarise)
importFrom(ggplot2,aes)
importFrom(ggplot2,annotate)
importFrom(ggplot2,geom_abline)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_segment)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,scale_color_discrete)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,xlab)
importFrom(ggplot2,ylab)
importFrom(haplo.stats,haplo.em)
importFrom(stringr,str_match)
importFrom(stringr,str_trim)
importFrom(tools,file_path_sans_ext)
importFrom(utils,read.table)
importFrom(utils,write.table)
