# Generated by roxygen2: do not edit by hand

export("lineNames<-")
export("selfing<-")
export(addExtraMarkerFromRawCall)
export(addExtraMarkers)
export(as.mpInterval)
export(assignFounderPattern)
export(backcrossPedigree)
export(biparentalDominant)
export(callFromMap)
export(changeMarkerPosition)
export(clusterOrderCross)
export(combineKeepRF)
export(computeAllEpistaticChiSquared)
export(computeGenotypeProbabilities)
export(detailedPedigree)
export(eightParentPedigreeImproperFunnels)
export(eightParentPedigreeRandomFunnels)
export(eightParentPedigreeSingleFunnel)
export(estimateMap)
export(estimateMapFromImputation)
export(estimateRF)
export(estimateRFSingleDesign)
export(expand)
export(exportMapToPretzl)
export(extraImputationPoints)
export(f2Pedigree)
export(finalNames)
export(finals)
export(fixedNumberOfFounderAlleles)
export(flatImputationMapNames)
export(formGroups)
export(founderNames)
export(founders)
export(fourParentPedigreeRandomFunnels)
export(fourParentPedigreeSingleFunnel)
export(fromMpMap)
export(generateGridPositions)
export(generateIntervalMidPoints)
export(getAllFunnels)
export(getAllFunnelsIncAIC)
export(getChromosomes)
export(getIntercrossingAndSelfingGenerations)
export(getPositions)
export(haldane)
export(haldaneToRf)
export(hetData)
export(hetsForSNPMarkers)
export(imputationData)
export(imputationKey)
export(imputationMap)
export(impute)
export(imputeFounders)
export(infiniteSelfing)
export(jitterMap)
export(kosambi)
export(kosambiToRf)
export(lineNames)
export(linesByNames)
export(listCodingErrors)
export(listCodingErrorsInfiniteSelfing)
export(markers)
export(mpcross)
export(mpcrossMapped)
export(multiparentSNP)
export(nFounders)
export(nLines)
export(nMarkers)
export(normalPhenotype)
export(omp_get_num_threads)
export(omp_set_num_threads)
export(orderCross)
export(pedigree)
export(pedigreeToGraph)
export(plotMosaic)
export(plotProbabilities)
export(probabilityData)
export(redact)
export(removeHets)
export(reverseChromosomes)
export(rfToHaldane)
export(rfToKosambi)
export(rilPedigree)
export(selfing)
export(simulateMPCross)
export(sixteenParentPedigreeRandomFunnels)
export(stripPedigree)
export(testDistortion)
export(toMpMap)
export(transposeProbabilities)
export(twoParentPedigree)
exportClasses(mpcross)
exportClasses(pedigreeGraph)
exportClasses(probabilities)
exportMethods(flatImputationMapNames)
exportMethods(imputationMap)
exportMethods(initialize)
exportMethods(lineNames)
exportMethods(plot)
exportMethods(subset)
import(ggplot2)
import(graphics)
import(methods)
import(qtl)
import(utils)
importClassesFrom(Matrix,dppMatrix)
importClassesFrom(Matrix,dspMatrix)
importClassesFrom(Matrix,index)
importClassesFrom(sn,SECdistrMv)
importFrom(Heatplus,heatmap_2)
importFrom(RColorBrewer,brewer.pal)
importFrom(car,linearHypothesis)
importFrom(fastcluster,hclust)
importFrom(ggplot2,ggplot)
importFrom(grDevices,dev.off)
importFrom(grDevices,pdf)
importFrom(graphics,plot)
importFrom(igraph,"E<-")
importFrom(igraph,E)
importFrom(igraph,V)
importFrom(igraph,edges)
importFrom(igraph,graph.empty)
importFrom(igraph,graph_from_adjacency_matrix)
importFrom(igraph,layout.reingold.tilford)
importFrom(igraph,max_cliques)
importFrom(igraph,plot.igraph)
importFrom(igraph,vertices)
importFrom(jsonlite,toJSON)
importFrom(methods,setClass)
importFrom(nnls,nnls)
importFrom(progress,progress_bar)
importFrom(pryr,address)
importFrom(sn,dmst)
importFrom(sn,extractSECdistr)
importFrom(sn,selm)
importFrom(stats,"contrasts<-")
importFrom(stats,as.dist)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,lm)
importFrom(stats,manova)
importFrom(stats,na.omit)
importFrom(stats,pchisq)
importFrom(stats,pf)
importFrom(stats,rnorm)
importFrom(utils,combn)
importFrom(utils,head)
importFrom(utils,tail)
importMethodsFrom(sn,plot)
useDynLib(mpMap2)
