# Generated by roxygen2: do not edit by hand

S3method(labelHaplotypes,default)
S3method(labelHaplotypes,gtypes)
S3method(plot,jack.influential)
S3method(print,gtypeSummary)
export("schemes<-")
export("strata<-")
export(Hstats)
export(LDgenepop)
export(TiTvRatio)
export(alleleFreqFormat)
export(alleleFreqs)
export(alleleSplit)
export(allelicRichness)
export(as.multidna)
export(baseFreqs)
export(clumpp)
export(createConsensus)
export(description)
export(df2gtypes)
export(dupGenotypes)
export(evanno)
export(exptdHet)
export(exptdNumAlleles)
export(fastsimcoal)
export(fixedDifferences)
export(fixedSites)
export(freq2GenData)
export(fscHistEv)
export(fscLocusParams)
export(fscPopInfo)
export(fstToNm)
export(fusFs)
export(gelato)
export(gelatoPlot)
export(genepop)
export(genepopWrite)
export(genind2gtypes)
export(gtypes2df)
export(gtypes2genind)
export(gtypes2loci)
export(haplotypeLikelihoods)
export(hweTest)
export(idRows)
export(isTi)
export(isTv)
export(iupacCode)
export(jackHWE)
export(jackInfluential)
export(jmodeltest)
export(labelHaplotypes)
export(loci)
export(loci2gtypes)
export(lowFreqSubs)
export(mRatio)
export(mafft)
export(mostDistantSequences)
export(mostRepresentativeSequences)
export(nStrata)
export(neiDa)
export(nucleotideDivergence)
export(nucleotideDiversity)
export(numAlleles)
export(numGensEq)
export(numMissing)
export(obsvdHet)
export(overallTest)
export(pairwiseTest)
export(permuteStrata)
export(phase)
export(phaseFilter)
export(phasePosterior)
export(phaseReadPair)
export(phaseReadSample)
export(phaseWrite)
export(popStructTest)
export(privateAlleles)
export(propSharedIds)
export(propSharedLoci)
export(propUniqueAlleles)
export(qaqc)
export(read.arlequin)
export(read.fasta)
export(read.mega)
export(readGenData)
export(removeSequences)
export(schemes)
export(sequence2gtypes)
export(sequences)
export(sharedAlleles)
export(simGammaHaps)
export(statChi2)
export(statFis)
export(statFst)
export(statFstPrime)
export(statGst)
export(statGstDblPrime)
export(statGstPrime)
export(statJostD)
export(statList)
export(statPhist)
export(strataNames)
export(strataSplit)
export(stratify)
export(structurePlot)
export(structureRead)
export(structureRun)
export(structureWrite)
export(subType)
export(summarizeLoci)
export(summarizeSeqs)
export(tajimasD)
export(theta)
export(trimNs)
export(validIupacCodes)
export(variableSites)
export(wrightFst)
export(write.arlequin)
export(write.fasta)
export(write.gtypes)
export(write.mega)
export(write.nexus.snapp)
exportClasses(gtypes)
exportMethods("[")
exportMethods("schemes<-")
exportMethods("strata<-")
exportMethods(as.matrix)
exportMethods(description)
exportMethods(indNames)
exportMethods(locNames)
exportMethods(loci)
exportMethods(nInd)
exportMethods(nLoc)
exportMethods(nStrata)
exportMethods(other)
exportMethods(ploidy)
exportMethods(schemes)
exportMethods(sequences)
exportMethods(strata)
exportMethods(strataNames)
exportMethods(summary)
import(adegenet)
import(ape)
import(apex)
importFrom(Hmisc,all.is.numeric)
importFrom(RColorBrewer,brewer.pal)
importFrom(Rcpp,sourceCpp)
importFrom(copula,Stirling1)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,geom_area)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,theme)
importFrom(ggplot2,xlab)
importFrom(ggplot2,ylab)
importFrom(graphics,abline)
importFrom(graphics,axis)
importFrom(graphics,box)
importFrom(graphics,curve)
importFrom(graphics,dotchart)
importFrom(graphics,hist)
importFrom(graphics,layout)
importFrom(graphics,mtext)
importFrom(graphics,par)
importFrom(graphics,segments)
importFrom(graphics,text)
importFrom(methods,new)
importFrom(methods,setClass)
importFrom(methods,setMethod)
importFrom(methods,validObject)
importFrom(parallel,detectCores)
importFrom(parallel,makeForkCluster)
importFrom(parallel,makePSOCKcluster)
importFrom(parallel,mclapply)
importFrom(parallel,parLapply)
importFrom(parallel,stopCluster)
importFrom(pegas,as.loci)
importFrom(pegas,hw.test)
importFrom(pegas,theta.h)
importFrom(reshape2,dcast)
importFrom(reshape2,melt)
importFrom(stats,cmdscale)
importFrom(stats,complete.cases)
importFrom(stats,dgamma)
importFrom(stats,dnorm)
importFrom(stats,integrate)
importFrom(stats,kmeans)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,qbeta)
importFrom(stats,quantile)
importFrom(stats,sd)
importFrom(stats,var)
importFrom(swfscMisc,diversity)
importFrom(swfscMisc,harmonic.mean)
importFrom(swfscMisc,odds)
importFrom(swfscMisc,pVal)
importFrom(swfscMisc,zero.pad)
importFrom(utils,combn)
importFrom(utils,file_test)
importFrom(utils,read.csv)
importFrom(utils,write.csv)
importFrom(utils,write.table)
useDynLib(strataG)
