rJPSGCS source listing

MD5

DESCRIPTION

NAMESPACE

inst/NEWS

inst/java/JPSGCS.jar

src/read_pedfile_priv.h

src/Makevars.win

src/registerR.c

src/writeTrasposedPEDfile.c

src/writePEDfile.c

src/Makevars

src/readPEDfile.c

java/McMultiPoints.java

java/McTLods.java

java/MakeProbands.java

java/HetCutOff.java

java/CheckFormat.java

java/TrimPed.java

java/SelectLoci.java

java/GetPolymorphisms.java

java/GeneCountAlleles.java

java/SimSGS.java

java/Heterozygosities.java

java/cMorgansToTheta.java

java/COPYING

java/GeneDrops.java

java/ViewPed.java

java/Triangulate.java

java/HGS.java

java/SelectKindreds.java

java/HetLods.java

java/McLinkage.java

java/CheckPedigree.java

java/ApproxGCHap.java

java/LinkageToFastPhase.java

java/ObligateErrors.java

java/ViewDAG.java

java/LDModelToGraph.java

java/SGS.java

java/TestRandom.java

java/HomozygousSGS.java

java/FitGMLD.java

java/CliquesToAdj.java

java/McKinship.java

java/FitGMLDNoWind.java

java/LocusLogLikelihoods.java

java/CheckErrors.java

java/DownCodeAlleles.java

java/overview.html

java/ViewLinkPed.java

java/CheckParameters.java

java/ViewGraph.java

java/TwoPointLods.java

java/FitGM.java

java/LinkageToPhase.java

java/SimHomozygousSGS.java

java/SelectPedigrees.java

java/HapMapToLinkage.java

java/CompileLDModel.java

java/Complete.java

java/MaxTwoPointLods.java

java/ZeroLoopPed.java

java/MakePed.java

java/GeneDrop.java

java/package.html

java/McCheck.java

java/JPSGCS.jar

java/TransposeLinkage.java

java/GCHap.java

java/CheckTriplets.java

java/SimHGS.java

java/jpsgcs/alun/animate/MouseKeyListener.java

java/jpsgcs/alun/animate/ActiveCanvas.java

java/jpsgcs/alun/animate/BufferedCanvas.java

java/jpsgcs/alun/animate/Paintable.java

java/jpsgcs/alun/animate/ScrollWidget.java

java/jpsgcs/alun/animate/TransformListener.java

java/jpsgcs/alun/animate/FrameQuitter.java

java/jpsgcs/alun/animate/Loop.java

java/jpsgcs/alun/hashing/RandomIdentitySet.java

java/jpsgcs/alun/hashing/IdentityHashMap.java

java/jpsgcs/alun/pedapps/PhaseKnownHaplotypes.java

java/jpsgcs/alun/pedapps/ErrorCount.java

java/jpsgcs/alun/pedapps/GeneticMap.java

java/jpsgcs/alun/pedapps/MarriageNodeGraph.java

java/jpsgcs/alun/pedapps/CompleteHaplotypes.java

java/jpsgcs/alun/pedapps/GeneDropper.java

java/jpsgcs/alun/pedapps/TLods.java

java/jpsgcs/alun/pedapps/CompletingPenetrance.java

java/jpsgcs/alun/pedapps/LocInfo.java

java/jpsgcs/alun/pedapps/Pedigrees.java

java/jpsgcs/alun/pedapps/AlleleSharing.java

java/jpsgcs/alun/pedapps/Kinship.java

java/jpsgcs/alun/pedapps/MultiPoints.java

java/jpsgcs/alun/pedapps/GeneCounter.java

java/jpsgcs/alun/pedmcmc/GenotypePenetrance.java

java/jpsgcs/alun/pedmcmc/ErrorLocusProduct.java

java/jpsgcs/alun/pedmcmc/AuxOneGenVariable.java

java/jpsgcs/alun/pedmcmc/LocusSampler.java

java/jpsgcs/alun/pedmcmc/GenepiFunction.java

java/jpsgcs/alun/pedmcmc/AlleleSegregation.java

java/jpsgcs/alun/pedmcmc/AllelePenetrance.java

java/jpsgcs/alun/pedmcmc/Inheritance.java

java/jpsgcs/alun/pedmcmc/ExtendedLMSampler.java

java/jpsgcs/alun/pedmcmc/AuxLocusFunction.java

java/jpsgcs/alun/pedmcmc/AllelePrior.java

java/jpsgcs/alun/pedmcmc/AuxGraphicalModel.java

java/jpsgcs/alun/pedmcmc/LDModel.java

java/jpsgcs/alun/pedmcmc/Error.java

java/jpsgcs/alun/pedmcmc/Recombination.java

java/jpsgcs/alun/pedmcmc/ErrorPrior.java

java/jpsgcs/alun/pedmcmc/GenotypeErrorPenetrance.java

java/jpsgcs/alun/pedmcmc/AuxVariable.java

java/jpsgcs/alun/pedmcmc/LocusProduct.java

java/jpsgcs/alun/pedmcmc/AlleleTransmission.java

java/jpsgcs/alun/pedmcmc/LocusMeiosisSampler.java

java/jpsgcs/alun/pedmcmc/GenotypePrior.java

java/jpsgcs/alun/pedmcmc/TwoLocusProduct.java

java/jpsgcs/alun/pedmcmc/AuxLinkFunction.java

java/jpsgcs/alun/pedmcmc/Allele.java

java/jpsgcs/alun/pedmcmc/AuxThreeGenVariable.java

java/jpsgcs/alun/pedmcmc/AlleleErrorPenetrance.java

java/jpsgcs/alun/pedmcmc/Genotype.java

java/jpsgcs/alun/pedmcmc/TwoSidedRecombination.java

java/jpsgcs/alun/util/Main.java

java/jpsgcs/alun/util/SafeThread.java

java/jpsgcs/alun/util/IntDoubleMap.java

java/jpsgcs/alun/util/Lattice.java

java/jpsgcs/alun/util/IntDoubleItem.java

java/jpsgcs/alun/util/DoubleValue.java

java/jpsgcs/alun/util/GoldenSection.java

java/jpsgcs/alun/util/InputFormatter.java

java/jpsgcs/alun/util/AlphaSet.java

java/jpsgcs/alun/util/Pair.java

java/jpsgcs/alun/util/LinearCalibrator.java

java/jpsgcs/alun/util/SafeRunnable.java

java/jpsgcs/alun/util/IntValue.java

java/jpsgcs/alun/util/RandomBag.java

java/jpsgcs/alun/util/StringFormatter.java

java/jpsgcs/alun/util/CartesianPoint.java

java/jpsgcs/alun/util/IntArray.java

java/jpsgcs/alun/util/Curve.java

java/jpsgcs/alun/util/RadixPlaneSorter.java

java/jpsgcs/alun/util/Triplet.java

java/jpsgcs/alun/util/Monitor.java

java/jpsgcs/alun/genio/PedigreeData.java

java/jpsgcs/alun/genio/Family.java

java/jpsgcs/alun/genio/GeneticDataSource.java

java/jpsgcs/alun/genio/ParameterData.java

java/jpsgcs/alun/genio/BasicGeneticData.java

java/jpsgcs/alun/genio/Pedigree.java

java/jpsgcs/alun/jtree/OnePairSampler.java

java/jpsgcs/alun/jtree/DiscreteData.java

java/jpsgcs/alun/jtree/PruferSorter.java

java/jpsgcs/alun/jtree/CardinalitySorter.java

java/jpsgcs/alun/jtree/CliqueScorer.java

java/jpsgcs/alun/jtree/JTreeSampler.java

java/jpsgcs/alun/jtree/MultinomialMLEScorer.java

java/jpsgcs/alun/jtree/GraphNotDecomposableException.java

java/jpsgcs/alun/jtree/DataMatrix.java

java/jpsgcs/alun/jtree/JTree.java

java/jpsgcs/alun/jtree/UniformDecomposable.java

java/jpsgcs/alun/jtree/ProperIntervalJTree.java

java/jpsgcs/alun/jtree/Clique.java

java/jpsgcs/alun/jtree/AbstractJTreeSampler.java

java/jpsgcs/alun/jtree/UniformJTree.java

java/jpsgcs/alun/jtree/OrderedJTree.java

java/jpsgcs/alun/jtree/Separator.java

java/jpsgcs/alun/jtree/IntegerMatrix.java

java/jpsgcs/alun/jtree/JTrees.java

java/jpsgcs/alun/gchap/MarkerPhenotype.java

java/jpsgcs/alun/gchap/MultiLocusTrait.java

java/jpsgcs/alun/gchap/MarkerObservation.java

java/jpsgcs/alun/gchap/HashOfHash.java

java/jpsgcs/alun/gchap/SNP.java

java/jpsgcs/alun/gchap/Marker.java

java/jpsgcs/alun/gchap/GeneticTrait.java

java/jpsgcs/alun/gchap/Locus.java

java/jpsgcs/alun/gchap/MultiLocusObservation.java

java/jpsgcs/alun/gchap/MultiLocusPhenotype.java

java/jpsgcs/alun/gchap/MultiLocus.java

java/jpsgcs/alun/gchap/HapFormatter.java

java/jpsgcs/alun/gchap/Phenotype.java

java/jpsgcs/alun/gchap/Genotype.java

java/jpsgcs/alun/gchap/Observation.java

java/jpsgcs/alun/gchap/Sorter.java

java/jpsgcs/alun/viewgraph/GraphAnimator.java

java/jpsgcs/alun/viewgraph/GraphFrame.java

java/jpsgcs/alun/viewgraph/ParameterScrollWidget.java

java/jpsgcs/alun/viewgraph/GraphListener.java

java/jpsgcs/alun/viewgraph/Blob.java

java/jpsgcs/alun/viewgraph/StringNode.java

java/jpsgcs/alun/viewgraph/GraphPanel.java

java/jpsgcs/alun/viewgraph/VertexRepresentation.java

java/jpsgcs/alun/viewgraph/PaintableGraph.java

java/jpsgcs/alun/random/MarkovState.java

java/jpsgcs/alun/random/BetaRV.java

java/jpsgcs/alun/random/ExponentialSwitching.java

java/jpsgcs/alun/random/RandomColor.java

java/jpsgcs/alun/random/DegenerateIntegerRV.java

java/jpsgcs/alun/random/VonMisesRV.java

java/jpsgcs/alun/random/Envelope.java

java/jpsgcs/alun/random/Line.java

java/jpsgcs/alun/random/BrownianMotion2D.java

java/jpsgcs/alun/random/CauchyRV.java

java/jpsgcs/alun/random/RandomEngine.java

java/jpsgcs/alun/random/BrownianMotion.java

java/jpsgcs/alun/random/PseudoRandomEngine.java

java/jpsgcs/alun/random/IntWithoutReplacement.java

java/jpsgcs/alun/random/MarkovChain.java

java/jpsgcs/alun/random/FisherRV.java

java/jpsgcs/alun/random/ParameterException.java

java/jpsgcs/alun/random/Locus2D.java

java/jpsgcs/alun/random/ExponentialRV.java

java/jpsgcs/alun/random/PoissonProcess.java

java/jpsgcs/alun/random/ChiSquaredRV.java

java/jpsgcs/alun/random/RandomObject.java

java/jpsgcs/alun/random/Sampling.java

java/jpsgcs/alun/random/RenewalCount.java

java/jpsgcs/alun/random/DiscreteStochasticProcess.java

java/jpsgcs/alun/random/DensityFunction.java

java/jpsgcs/alun/random/StudentsRV.java

java/jpsgcs/alun/random/UniformIntegerRV.java

java/jpsgcs/alun/random/GammaRV.java

java/jpsgcs/alun/random/Sampler.java

java/jpsgcs/alun/random/Rand.java

java/jpsgcs/alun/random/RatioRegion.java

java/jpsgcs/alun/random/AhrensDieter.java

java/jpsgcs/alun/random/GeneralExponentialRV.java

java/jpsgcs/alun/random/IntegerValuedRV.java

java/jpsgcs/alun/random/AliasRejection.java

java/jpsgcs/alun/random/NegativeBinomialRV.java

java/jpsgcs/alun/random/ChengFeast.java

java/jpsgcs/alun/random/Count.java

java/jpsgcs/alun/random/HotBitsEngine.java

java/jpsgcs/alun/random/Metropolis.java

java/jpsgcs/alun/random/WeibullRV.java

java/jpsgcs/alun/random/BirthAndDeathProcess.java

java/jpsgcs/alun/random/Locus.java

java/jpsgcs/alun/random/BuiltInGenerator.java

java/jpsgcs/alun/random/CongruentialGenerator.java

java/jpsgcs/alun/random/Metropolitan.java

java/jpsgcs/alun/random/FiniteStateMC.java

java/jpsgcs/alun/random/RandomUrn.java

java/jpsgcs/alun/random/StochasticState.java

java/jpsgcs/alun/random/Random.java

java/jpsgcs/alun/random/RandomWalk.java

java/jpsgcs/alun/random/Rejection.java

java/jpsgcs/alun/random/BinomialRV.java

java/jpsgcs/alun/random/RatioOfUniforms.java

java/jpsgcs/alun/random/RenewalProcess.java

java/jpsgcs/alun/random/RandomBag.java

java/jpsgcs/alun/random/PoissonRV.java

java/jpsgcs/alun/random/LogConcave.java

java/jpsgcs/alun/random/GeometricRV.java

java/jpsgcs/alun/random/GaussianRV.java

java/jpsgcs/alun/random/DegenerateRV.java

java/jpsgcs/alun/random/IntegerMethod.java

java/jpsgcs/alun/random/AhrensBinomial.java

java/jpsgcs/alun/random/BernoulliRV.java

java/jpsgcs/alun/random/MetropolitanMC.java

java/jpsgcs/alun/random/WichmanHill.java

java/jpsgcs/alun/random/Point.java

java/jpsgcs/alun/random/NormalRV.java

java/jpsgcs/alun/random/RandomPermutation.java

java/jpsgcs/alun/random/ThrownString.java

java/jpsgcs/alun/random/DifferentiableLogConcave.java

java/jpsgcs/alun/random/StochasticProcess.java

java/jpsgcs/alun/random/UniformRV.java

java/jpsgcs/alun/random/IntWithReplacement.java

java/jpsgcs/alun/random/AdaptiveRejection.java

java/jpsgcs/alun/random/ExponentialMixture.java

java/jpsgcs/alun/random/Inversion.java

java/jpsgcs/alun/random/RandomVariable.java

java/jpsgcs/alun/random/GenerationMethod.java

java/jpsgcs/alun/random/IntSampling.java

java/jpsgcs/alun/random/Mixture.java

java/jpsgcs/alun/random/InverseDistribution.java

java/jpsgcs/alun/random/PopulationCount.java

java/jpsgcs/alun/zeroloop/OneParentalMarriageConstraint.java

java/jpsgcs/alun/zeroloop/Marriage.java

java/jpsgcs/alun/zeroloop/Individual.java

java/jpsgcs/alun/zeroloop/PedNode.java

java/jpsgcs/alun/zeroloop/EdgeConstraint.java

java/jpsgcs/alun/zeroloop/TwoParentConstraint.java

java/jpsgcs/alun/zeroloop/RandomPedTree.java

java/jpsgcs/alun/zeroloop/ZeroLoopPedGenerator.java

java/jpsgcs/alun/zeroloop/MonogamyConstraint.java

java/jpsgcs/alun/zeroloop/Edge.java

java/jpsgcs/alun/linkage/SteppedLinkageData.java

java/jpsgcs/alun/linkage/LinkageException.java

java/jpsgcs/alun/linkage/QuantitativeLocus.java

java/jpsgcs/alun/linkage/AffectionStatusLocus.java

java/jpsgcs/alun/linkage/Linkage.java

java/jpsgcs/alun/linkage/QuantitativePhenotype.java

java/jpsgcs/alun/linkage/LinkageLocus.java

java/jpsgcs/alun/linkage/NumberedAlleleLocus.java

java/jpsgcs/alun/linkage/NumberedAllelePhenotype.java

java/jpsgcs/alun/linkage/LinkageFormatter.java

java/jpsgcs/alun/linkage/LinkageInterface.java

java/jpsgcs/alun/linkage/LinkageDataSet.java

java/jpsgcs/alun/linkage/LinkageParameterData.java

java/jpsgcs/alun/linkage/LinkConstants.java

java/jpsgcs/alun/linkage/AffectionStatusPhenotype.java

java/jpsgcs/alun/linkage/LinkagePhenotype.java

java/jpsgcs/alun/linkage/LinkagePedigreeData.java

java/jpsgcs/alun/linkage/TransposedPedigreeData.java

java/jpsgcs/alun/linkage/LinkageIndividual.java

java/jpsgcs/alun/markov/MultiVariable.java

java/jpsgcs/alun/markov/ModelInfo.java

java/jpsgcs/alun/markov/Variable.java

java/jpsgcs/alun/markov/Functions.java

java/jpsgcs/alun/markov/GraphicalModel.java

java/jpsgcs/alun/markov/MarkovRandomField.java

java/jpsgcs/alun/markov/Potential.java

java/jpsgcs/alun/markov/Table.java

java/jpsgcs/alun/markov/Function.java

java/jpsgcs/alun/markov/Trivial.java

java/jpsgcs/alun/markov/DenseTable.java

java/jpsgcs/alun/markov/Iterable.java

java/jpsgcs/alun/graph/Graphs.java

java/jpsgcs/alun/graph/DAGLocator.java

java/jpsgcs/alun/graph/LocatedGraph.java

java/jpsgcs/alun/graph/GraphLocator.java

java/jpsgcs/alun/graph/GraphSkeleton.java

java/jpsgcs/alun/graph/LocatedMaskedGraph.java

java/jpsgcs/alun/graph/RootedLocalLocator.java

java/jpsgcs/alun/graph/MaskedGraph.java

java/jpsgcs/alun/graph/IdentityNetwork.java

java/jpsgcs/alun/graph/MutableGraph.java

java/jpsgcs/alun/graph/Network.java

java/jpsgcs/alun/graph/Parameter.java

java/jpsgcs/alun/graph/Derivatives.java

java/jpsgcs/alun/graph/NetworkMask.java

java/jpsgcs/alun/graph/Point.java

java/jpsgcs/alun/graph/Graph.java

java/jpsgcs/alun/graph/LocalLocator.java

data/exdat.rda

rJPSGCS
R-Interface to Gene Drop Simulation from JPSGCS

Files in rJPSGCS
R-Interface to Gene Drop Simulation from JPSGCS

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rJPSGCS R-Interface to Gene Drop Simulation from JPSGCS

Files in rJPSGCS R-Interface to Gene Drop Simulation from JPSGCS

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rJPSGCS
R-Interface to Gene Drop Simulation from JPSGCS

Files in rJPSGCS
R-Interface to Gene Drop Simulation from JPSGCS