# Generated by roxygen2: do not edit by hand

S3method(print,PTXQC_table)
export(LCS)
export(LCSn)
export(RTalignmentTree)
export(YAMLClass)
export(addGGtitle)
export(assignBlocks)
export(boxplotCompare)
export(byX)
export(byXflex)
export(correctSetSize)
export(createReport)
export(delLCP)
export(delLCS)
export(getECDF)
export(getFragmentErrors)
export(getMQPARValue)
export(getMaxima)
export(getPCA)
export(getReportFilenames)
export(grepv)
export(lcpCount)
export(lcsCount)
export(longestCommonPrefix)
export(longestCommonSuffix)
export(mosaicize)
export(pasten)
export(pastet)
export(peakWidthOverTime)
export(plotTable)
export(plot_CalibratedMSErr)
export(plot_Charge)
export(plot_ContEVD)
export(plot_ContUser)
export(plot_ContUserScore)
export(plot_ContsPG)
export(plot_CountData)
export(plot_IDRate)
export(plot_IDsOverRT)
export(plot_IonInjectionTimeOverRT)
export(plot_MBRAlign)
export(plot_MBRIDtransfer)
export(plot_MBRgain)
export(plot_MS2Decal)
export(plot_MS2Oversampling)
export(plot_MissedCleavages)
export(plot_RTPeakWidth)
export(plot_RatiosPG)
export(plot_ScanIDRate)
export(plot_TopN)
export(plot_TopNoverRT)
export(plot_UncalibratedMSErr)
export(pointsPutX)
export(qcMetric)
export(qualBestKS)
export(qualCentered)
export(qualCenteredRef)
export(qualGaussDev)
export(qualHighest)
export(qualLinThresh)
export(qualMedianDist)
export(qualUniform)
export(read.MQ)
export(renameFile)
export(repEach)
export(shortenStrings)
export(simplifyNames)
export(supCount)
export(theme_blank)
exportClasses(YAMLClass)
exportClasses(qcMetric)
import(ggdendro)
import(ggplot2)
import(graphics)
import(gridExtra)
import(gtable)
import(methods)
import(proto)
import(stats)
import(utils)
importFrom(RColorBrewer,brewer.pal)
importFrom(RColorBrewer,brewer.pal.info)
importFrom(data.table,as.data.table)
importFrom(data.table,setkey)
importFrom(grDevices,boxplot.stats)
importFrom(grDevices,dev.off)
importFrom(grDevices,pdf)
importFrom(grid,gList)
importFrom(grid,gTree)
importFrom(grid,gpar)
importFrom(grid,grid.draw)
importFrom(grid,grid.newpage)
importFrom(grid,grobHeight)
importFrom(grid,grobWidth)
importFrom(grid,rectGrob)
importFrom(grid,textGrob)
importFrom(grid,unit.c)
importFrom(plyr,adply)
importFrom(plyr,compact)
importFrom(plyr,ddply)
importFrom(plyr,dlply)
importFrom(plyr,empty)
importFrom(plyr,ldply)
importFrom(plyr,llply)
importFrom(plyr,mapvalues)
importFrom(plyr,summarise)
importFrom(plyr,summarize)
importFrom(reshape2,dcast)
importFrom(reshape2,melt)
importFrom(rmarkdown,render)
importFrom(seqinr,circle)
importFrom(yaml,as.yaml)
