LCE: A C++ Class Library for Lumped Coalescent Experiments

o+Main Page

o*Todo List

o+Class List

|o*aabc::AABCexception

|o*aabc::DataObject

|o*aabc::DataObjectSet

|o*aabc::DescriptiveStats

|o*aabc::GenericDataObjectSampler

|o*aabc::GenericDataObjectSet

|o*aabc::MixtureTest

|o*aabc::MixtureTest2D

|o*aabc::MixtureTest2DSampler

|o*aabc::MixtureTestSampler

|o*aabc::MultiLociPolySitesSampler

|o*aabc::MultiLociPolyTableSampler

|o*aabc::MultiLociSimDataSampler

|o*aabc::ParameterParticle

|o*aabc::ParameterParticleSet

|o*aabc::ParameterParticleSetAnalysis

|o*aabc::ParameterParticleValidationResult

|o*aabc::ParameterParticleValidationResultSet

|o*aabc::ParameterParticleValidator

|o*aabc::ParameterParticleValidatorGenericDataObject

|o*aabc::ParameterParticleValidatorMultiLociPolyTable

|o*aabc::ParameterParticleValidatorSequences

|o*aabc::ParameterPrior

|o*aabc::ParameterPriorNormal

|o*aabc::ParameterPriorSet

|o*aabc::ParameterPriorUniform

|o*aabc::PopMCabcSimulatorAdaptive

|o*aabc::SequenceSampler

|o*aabc::SummaryStatistic

|o*aabc::SummaryStatisticSet

|o*bfs_accumulate_count_visitor

|o*bfs_average_edges_visitor

|o*BFSInfo

|o*coloured_label_writer< Name, Colour >

|o*Count_PRw_ISw

|o*FseqInfo

|o*kahan_sum< T >

|o*LexicoSorting< T >

|o*libseq::LibSeq

|o*libseq::Libseq_exception

|o*libseq::MultiLociPolyTable

|o*libseq::MultiLociPolyTableSet

|o*mct::ARGParser

|o*mct::ARGReader

|o*mct::MCTexception

|o*mct::MCTLocusMap

|o*mct::MCTLocusMap::Block

|o*mct::MCTSampleSequence

|o*mct::Model

|o*mct::ModelAQB

|o*mct::ModelData

|o*mct::ModelEXP

|o*mct::ModelFactory

|o*mct::ModelFactory::ModelInfo

|o*mct::ModelJC69

|o*mct::ModelOptionsParser

|o*mct::ModelPL

|o*mct::ModelREV

|o*mct::ModelSet

|o*mct::ModelSetConfigBuilder

|o*mct::ModelSMM

|o*mct::NewickParser

|o*mct::NewickParser::Token

|o*mct::Node

|o*mct::Partition

|o*mct::PartitionedARG

|o*mct::Tree

|o*OneMove

|o*output_Lkl

|o*output_LklShi

|o*output_params

|o*output_results

|o*output_results2

|o*params

|o*ParamsTeePee

|o*reg::LinearRegressionStep

|o*reg::LogTransformer

|o*reg::NullTransformer

|o*reg::RegException

|o*reg::TanTransformer

|o*reg::Transformer

|o*SetItPairSorting

|o*SetItSorting

|o*SfsInfo

|o*StateSequenceItSorting

|o*StateSequenceSorting

|o*StateTypeSorting

|o*TCLAP::Arg

|o*TCLAP::ArgException

|o*TCLAP::ArgParseException

|o*TCLAP::ArgTraits< T >

|o*TCLAP::ArgTraits< bool >

|o*TCLAP::ArgTraits< char >

|o*TCLAP::ArgTraits< double >

|o*TCLAP::ArgTraits< float >

|o*TCLAP::ArgTraits< int >

|o*TCLAP::ArgTraits< long >

|o*TCLAP::ArgTraits< short >

|o*TCLAP::ArgTraits< std::string >

|o*TCLAP::ArgTraits< unsigned char >

|o*TCLAP::ArgTraits< unsigned int >

|o*TCLAP::ArgTraits< unsigned long >

|o*TCLAP::ArgTraits< unsigned short >

|o*TCLAP::ArgTraits< wchar_t >

|o*TCLAP::CmdLine

|o*TCLAP::CmdLineInterface

|o*TCLAP::CmdLineOutput

|o*TCLAP::CmdLineParseException

|o*TCLAP::Constraint< T >

|o*TCLAP::DocBookOutput

|o*TCLAP::ExitException

|o*TCLAP::HelpVisitor

|o*TCLAP::IgnoreRestVisitor

|o*TCLAP::MultiArg< T >

|o*TCLAP::MultiSwitchArg

|o*TCLAP::OptionalUnlabeledTracker

|o*TCLAP::SpecificationException

|o*TCLAP::StdOutput

|o*TCLAP::StringLike

|o*TCLAP::StringLikeTrait

|o*TCLAP::SwitchArg

|o*TCLAP::UnlabeledMultiArg< T >

|o*TCLAP::UnlabeledValueArg< T >

|o*TCLAP::ValueArg< T >

|o*TCLAP::ValueLike

|o*TCLAP::ValueLikeTrait

|o*TCLAP::ValuesConstraint< T >

|o*TCLAP::VersionVisitor

|o*TCLAP::Visitor

|o*TCLAP::XorHandler

|o*TCLAP::ZshCompletionOutput

|o*unnamed_black_and_white_label_writer

|\*unnamed_coloured_label_writer< Colour >

o+Class Hierarchy

|o*aabc::AABCexception

|o+aabc::DataObject

|o*aabc::DescriptiveStats

|o+aabc::GenericDataObjectSampler

|o+aabc::MultiLociPolyTableSampler

|o*aabc::ParameterParticle

|o*aabc::ParameterParticleSet

|o*aabc::ParameterParticleSetAnalysis

|o*aabc::ParameterParticleValidationResult

|o*aabc::ParameterParticleValidationResultSet

|o+aabc::ParameterParticleValidator

|o+aabc::ParameterPrior

|o*aabc::ParameterPriorSet

|o*aabc::PopMCabcSimulatorAdaptive

|o*aabc::SequenceSampler

|o*aabc::SummaryStatistic

|o*bfs_accumulate_count_visitor

|o*bfs_average_edges_visitor

|o*BFSInfo

|o*coloured_label_writer< Name, Colour >

|o*Count_PRw_ISw

|o*FseqInfo

|o*kahan_sum< T >

|o*LexicoSorting< T >

|o*libseq::LibSeq

|o*libseq::Libseq_exception

|o+mct::ARGParser

|o*mct::ARGReader

|o*mct::MCTexception

|o*mct::MCTLocusMap

|o*mct::MCTLocusMap::Block

|o*mct::MCTSampleSequence

|o+mct::Model

|o*mct::ModelData

|o*mct::ModelFactory

|o*mct::ModelFactory::ModelInfo

|o*mct::ModelOptionsParser

|o*mct::ModelSet

|o*mct::ModelSetConfigBuilder

|o*mct::NewickParser::Token

|o*mct::Node

|o*mct::Partition

|o*mct::PartitionedARG

|o*mct::Tree

|o*OneMove

|o*output_Lkl

|o*output_LklShi

|o*output_params

|o*output_results

|o*output_results2

|o*params

|o*ParamsTeePee

|o*reg::LinearRegressionStep

|o*reg::RegException

|o+reg::Transformer

|o*SetItPairSorting

|o*SetItSorting

|o*SfsInfo

|o*StateSequenceItSorting

|o*StateSequenceSorting

|o*StateTypeSorting

|o+TCLAP::Arg

|o+TCLAP::ArgException

|o*TCLAP::ArgTraits< T >

|o*TCLAP::ArgTraits< bool >

|o*TCLAP::ArgTraits< char >

|o*TCLAP::ArgTraits< double >

|o*TCLAP::ArgTraits< float >

|o*TCLAP::ArgTraits< int >

|o*TCLAP::ArgTraits< long >

|o*TCLAP::ArgTraits< short >

|o*TCLAP::ArgTraits< std::string >

|o*TCLAP::ArgTraits< unsigned char >

|o*TCLAP::ArgTraits< unsigned int >

|o*TCLAP::ArgTraits< unsigned long >

|o*TCLAP::ArgTraits< unsigned short >

|o*TCLAP::ArgTraits< wchar_t >

|o+TCLAP::CmdLineInterface

|o+TCLAP::CmdLineOutput

|o+TCLAP::Constraint< T >

|o*TCLAP::ExitException

|o*TCLAP::OptionalUnlabeledTracker

|o*TCLAP::StringLike

|o*TCLAP::StringLikeTrait

|o*TCLAP::ValueLike

|o*TCLAP::ValueLikeTrait

|o+TCLAP::Visitor

|o*TCLAP::XorHandler

|o*unnamed_black_and_white_label_writer

|\*unnamed_coloured_label_writer< Colour >

o*Class Members

o*Graphical Class Hierarchy

o+Namespace List

o*Namespace Members

o+File List

|o*aabc_exception.cpp

|o*aabc_exception.hpp

|o*abc_algebra_adapted.cpp

|o*abc_algebra_adapted.hpp

|o*Arg.h

|o*arg_parser.cpp

|o*arg_parser.hpp

|o*arg_reader.cpp

|o*arg_reader.hpp

|o*ArgException.h

|o*ArgTraits.h

|o*CmdLine.h

|o*CmdLineInterface.h

|o*CmdLineOutput.h

|o*compare.cpp

|o*config.h

|o*Constraint.h

|o*data_object.hpp

|o*data_object_set.cpp

|o*data_object_set.hpp

|o*descriptive_stats.cpp

|o*descriptive_stats.hpp

|o*DocBookOutput.h

|o*src/docu.hpp

|o*mct/src/docu.hpp

|o*ebc_fseq.cpp

|o*ebc_fseq.hpp

|o*ebc_fseq_efficient_graph.cpp

|o*ebc_fseq_efficient_graph.hpp

|o*ebc_fseq_general_graph.cpp

|o*ebc_fseq_general_graph.hpp

|o*ebc_fxzseq_efficient_graph.cpp

|o*ebc_fxzseq_efficient_graph.hpp

|o*ebc_fxzseq_named_graph.cpp

|o*ebc_fxzseq_named_graph.hpp

|o*ebc_graphtypes.hpp

|o*ebc_moves.cpp

|o*ebc_moves.hpp

|o*ebc_output.cpp

|o*ebc_output.hpp

|o*ebc_params.cpp

|o*ebc_params.hpp

|o*ebc_precomp_TsPs.cpp

|o*ebc_precomp_TsPs.hpp

|o*ebc_process_options.cpp

|o*ebc_process_options.hpp

|o*ebc_sfsdata.cpp

|o*ebc_sfsdata.hpp

|o*ebc_sfsinteg.cpp

|o*ebc_sfsinteg.hpp

|o*ebc_sfsparticles.cpp

|o*ebc_sfsparticles.hpp

|o*ebc_sfstypes.cpp

|o*ebc_sfstypes.hpp

|o*ebc_summaries.cpp

|o*ebc_summaries.hpp

|o*ExactPvals1.cpp

|o*FseqCompatibles.cpp

|o*generate_posterior_adapted.cpp

|o*generate_posterior_adapted.hpp

|o*generic_data_object_sampler.cpp

|o*generic_data_object_sampler.hpp

|o*generic_data_object_set.cpp

|o*generic_data_object_set.hpp

|o*getopt.c

|o*getopt1.c

|o*getoptFix.h

|o*HelpVisitor.h

|o*IgnoreRestVisitor.h

|o*libseq.cpp

|o*libseq.hpp

|o*libseq_exception.cpp

|o*libseq_exception.hpp

|o*local_debug.hpp

|o*ebc/src/main.cpp

|o*mct/src/main.cpp

|o*main.hpp

|o*mainBackupBeforeChanges2Feb2010.cpp

|o*mct_exception.cpp

|o*mct_exception.hpp

|o*mct_locus_map.cpp

|o*mct_locus_map.hpp

|o*mct_model_data_types.hpp

|o*mct_sample_sequence.cpp

|o*mct_sample_sequence.hpp

|o*mixture_test.cpp

|o*mixture_test.hpp

|o*mixture_test_2d.cpp

|o*mixture_test_2d.hpp

|o*mixture_test_2d_sampler.cpp

|o*mixture_test_2d_sampler.hpp

|o*mixture_test_sampler.cpp

|o*mixture_test_sampler.hpp

|o*model.cpp

|o*model.hpp

|o*model_data.hpp

|o*model_options_parser.cpp

|o*model_options_parser.hpp

|o*model_set_config_builder.cpp

|o*model_set_config_builder.hpp

|o*modelfactory.cpp

|o*modelfactory.hpp

|o*modelset.cpp

|o*modelset.hpp

|o*multi_loci_polysites_sampler.cpp

|o*multi_loci_polysites_sampler.hpp

|o*multi_loci_polytable.cpp

|o*multi_loci_polytable.hpp

|o*multi_loci_polytable_sampler.cpp

|o*multi_loci_polytable_sampler.hpp

|o*multi_loci_polytable_set.cpp

|o*multi_loci_polytable_set.hpp

|o*multi_loci_simdata_sampler.cpp

|o*multi_loci_simdata_sampler.hpp

|o*MultiArg.h

|o*multiarray.cpp

|o*MultiSwitchArg.h

|o*nodes_and_trees.cpp

|o*nodes_and_trees.hpp

|o*OptionalUnlabeledTracker.h

|o*ParamEst.cpp

|o*parameter_particle.cpp

|o*parameter_particle.hpp

|o*parameter_particle_set.cpp

|o*parameter_particle_set.hpp

|o*parameter_particle_set_analysis.cpp

|o*parameter_particle_set_analysis.hpp

|o*parameter_particle_validation_result.cpp

|o*parameter_particle_validation_result.hpp

|o*parameter_particle_validation_result_set.cpp

|o*parameter_particle_validation_result_set.hpp

|o*parameter_particle_validator.cpp

|o*parameter_particle_validator.hpp

|o*parameter_particle_validator_generic_data_object.cpp

|o*parameter_particle_validator_generic_data_object.hpp

|o*parameter_particle_validator_multi_loci_polytable.cpp

|o*parameter_particle_validator_multi_loci_polytable.hpp

|o*parameter_particle_validator_sequences.cpp

|o*parameter_particle_validator_sequences.hpp

|o*parameter_prior.cpp

|o*parameter_prior.hpp

|o*parameter_prior_normal.cpp

|o*parameter_prior_normal.hpp

|o*parameter_prior_set.cpp

|o*parameter_prior_set.hpp

|o*parameter_prior_uniform.cpp

|o*parameter_prior_uniform.hpp

|o*partition.cpp

|o*partition.hpp

|o*partitioned_arg.cpp

|o*partitioned_arg.hpp

|o*pop_mc_abc_simulator_adaptive.cpp

|o*pop_mc_abc_simulator_adaptive.hpp

|o*reg_adapted.cpp

|o*reg_adapted.hpp

|o*reg_exception.cpp

|o*reg_exception.hpp

|o*reg_linreg_step.cpp

|o*reg_linreg_step.hpp

|o*reg_transformer.cpp

|o*reg_transformer.hpp

|o*reg_transformer_log.cpp

|o*reg_transformer_log.hpp

|o*reg_transformer_null.cpp

|o*reg_transformer_null.hpp

|o*reg_transformer_tan.cpp

|o*reg_transformer_tan.hpp

|o*rmv.cpp

|o*rmv.h

|o*sequence_sampler.cpp

|o*sequence_sampler.hpp

|o*site_seq.hpp

|o*StandardTraits.h

|o*StdOutput.h

|o*string_from_file.cpp

|o*string_from_file.hpp

|o*summary_statistic.cpp

|o*summary_statistic.hpp

|o*summary_statistic_set.cpp

|o*summary_statistic_set.hpp

|o*SwitchArg.h

|o*TajDPvals1.cpp

|o*TajDPvalsM.cpp

|o*TajDPvalsOutputDs.cpp

|o*transformations_adapted.cpp

|o*transformations_adapted.hpp

|o*UnlabeledMultiArg.h

|o*UnlabeledValueArg.h

|o*ValueArg.h

|o*ValuesConstraint.h

|o*VersionVisitor.h

|o*Visitor.h

|o*XorHandler.h

|\*ZshCompletionOutput.h

\*File Members