# Generated by roxygen2: do not edit by hand

S3method("afreq<-",list)
S3method("afreq<-",marker)
S3method("afreq<-",ped)
S3method("chrom<-",list)
S3method("chrom<-",marker)
S3method("chrom<-",ped)
S3method("famid<-",ped)
S3method("genotype<-",marker)
S3method("genotype<-",ped)
S3method("mutmod<-",list)
S3method("mutmod<-",marker)
S3method("mutmod<-",ped)
S3method("name<-",list)
S3method("name<-",marker)
S3method("name<-",ped)
S3method("posMb<-",marker)
S3method("posMb<-",ped)
S3method(afreq,list)
S3method(afreq,marker)
S3method(afreq,ped)
S3method(alleles,list)
S3method(alleles,marker)
S3method(alleles,ped)
S3method(allowsMutations,default)
S3method(allowsMutations,list)
S3method(allowsMutations,marker)
S3method(allowsMutations,ped)
S3method(as.data.frame,ped)
S3method(as.matrix,ped)
S3method(as.ped,data.frame)
S3method(chrom,list)
S3method(chrom,marker)
S3method(chrom,ped)
S3method(emptyMarker,default)
S3method(emptyMarker,list)
S3method(emptyMarker,marker)
S3method(emptyMarker,ped)
S3method(famid,ped)
S3method(format,marker)
S3method(genotype,marker)
S3method(genotype,ped)
S3method(isXmarker,default)
S3method(isXmarker,list)
S3method(isXmarker,marker)
S3method(isXmarker,ped)
S3method(labels,list)
S3method(labels,ped)
S3method(mutmod,list)
S3method(mutmod,marker)
S3method(mutmod,ped)
S3method(nAlleles,default)
S3method(nAlleles,list)
S3method(nAlleles,marker)
S3method(nAlleles,ped)
S3method(nTyped,default)
S3method(nTyped,list)
S3method(nTyped,marker)
S3method(nTyped,ped)
S3method(name,list)
S3method(name,marker)
S3method(name,ped)
S3method(plot,list)
S3method(plot,ped)
S3method(plot,pedList)
S3method(posMb,marker)
S3method(posMb,ped)
S3method(print,marker)
S3method(print,nucleus)
S3method(print,ped)
S3method(subset,ped)
S3method(summary,list)
S3method(summary,ped)
S3method(summary,singleton)
export("afreq<-")
export("chrom<-")
export("famid<-")
export("founderInbreeding<-")
export("genotype<-")
export("mutmod<-")
export("name<-")
export("posMb<-")
export(.annotatePed)
export(.drawPed)
export(.pedAlignment)
export(.pedAnnotation)
export(.pedScaling)
export(addAllele)
export(addChild)
export(addChildren)
export(addDaughter)
export(addMarker)
export(addMarkers)
export(addParents)
export(addSibling)
export(addSon)
export(afreq)
export(alleles)
export(allowsMutations)
export(ancestors)
export(ancestralPed)
export(as.ped)
export(as_kinship2_pedigree)
export(avuncularPed)
export(branch)
export(breakLoops)
export(children)
export(chrom)
export(commonAncestors)
export(commonDescendants)
export(connectedComponents)
export(cousinPed)
export(descendants)
export(descentPaths)
export(distributeMarkers)
export(doubleCousins)
export(doubleFirstCousins)
export(drawPed)
export(emptyMarker)
export(expectedHeterozygosity)
export(expectedHomozygosity)
export(extractSingletons)
export(famid)
export(father)
export(females)
export(findLoopBreakers)
export(findLoopBreakers2)
export(founderInbreeding)
export(founders)
export(foundersFirst)
export(fullSibMating)
export(generations)
export(genotype)
export(getAlleles)
export(getComponent)
export(getFreqDatabase)
export(getGenotypes)
export(getLocusAttributes)
export(getMap)
export(getMarkers)
export(getSex)
export(grandparents)
export(halfCousinPed)
export(halfSibPed)
export(halfSibStack)
export(halfSibTriangle)
export(harmoniseMarkers)
export(hasCommonAncestor)
export(hasInbredFounders)
export(hasLinkedMarkers)
export(hasMarkers)
export(hasParentsBeforeChildren)
export(hasSelfing)
export(hasUnbrokenLoops)
export(inbreedingLoops)
export(internalID)
export(is.marker)
export(is.markerList)
export(is.ped)
export(is.pedList)
export(is.singleton)
export(isHomozygous)
export(isXmarker)
export(leaves)
export(linearPed)
export(males)
export(marker)
export(maskPed)
export(mendelianCheck)
export(mergePed)
export(mother)
export(mutmod)
export(nAlleles)
export(nChildren)
export(nMarkers)
export(nTyped)
export(name)
export(nephews_nieces)
export(newMarker)
export(newPed)
export(niblings)
export(nonfounders)
export(nuclearPed)
export(parents)
export(parentsBeforeChildren)
export(ped)
export(pedsize)
export(peelingOrder)
export(piblings)
export(plotPedList)
export(posMb)
export(quadHalfFirstCousins)
export(randomPed)
export(readFreqDatabase)
export(readPed)
export(relabel)
export(removeGenotypes)
export(removeIndividuals)
export(removeMarkers)
export(reorderPed)
export(restorePed)
export(sameGenotype)
export(selectMarkers)
export(selfingPed)
export(setAfreq)
export(setAlleleLabels)
export(setAlleles)
export(setChrom)
export(setFounderInbreeding)
export(setFreqDatabase)
export(setGenotype)
export(setLocusAttributes)
export(setMap)
export(setMarkername)
export(setMarkers)
export(setMutmod)
export(setPosition)
export(setSNPs)
export(setSex)
export(siblings)
export(singleton)
export(singletons)
export(sortGenotypes)
export(spouses)
export(subnucs)
export(swapGenotypes)
export(swapSex)
export(tieLoops)
export(transferMarkers)
export(trim)
export(typedMembers)
export(unmaskPed)
export(unrelated)
export(untypedMembers)
export(validatePed)
export(whichMarkers)
export(writeFreqDatabase)
export(writePed)
importFrom(grDevices,dev.new)
importFrom(grDevices,dev.size)
importFrom(graphics,arrows)
importFrom(graphics,frame)
importFrom(graphics,grconvertX)
importFrom(graphics,grconvertY)
importFrom(graphics,layout)
importFrom(graphics,lines)
importFrom(graphics,mtext)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(graphics,plot.default)
importFrom(graphics,points)
importFrom(graphics,polygon)
importFrom(graphics,rect)
importFrom(graphics,segments)
importFrom(graphics,strheight)
importFrom(graphics,strwidth)
importFrom(graphics,text.default)
importFrom(kinship2,align.pedigree)
importFrom(pedmut,getParams)
importFrom(pedmut,mutationModel)
importFrom(stats,setNames)
importFrom(utils,as.roman)
importFrom(utils,head)
importFrom(utils,modifyList)
importFrom(utils,read.table)
importFrom(utils,write.table)
