This inheritance list is sorted roughly, but not completely, alphabetically:

[detail level 12]

CSequence::_PolySNPImpl
▼CSequence::AlignStream< T >	Virtual interface to alignment streams
CSequence::ClustalW< T >	ClustalW streams
CSequence::phylipData< T >
CSequence::AlleleCountMatrix	Matrix representation of allele counts in a VariantMatrix To be constructed
CSequence::AlleleCounts
CSequence::ambiguousNucleotide	Tests if a character is in the set A,G,C,T
CSequence::coalsim::chromosome	A chromosome is a container of segments
CSequence::internal::col_view_< T >	Implementation details for Sequence::ColView and Sequence::ConstColView
CSequence::col_view_iterator< POINTER >	Iterator for column views
CSequence::Comeron95	Ka and Ks by Comeron's (1995) method
CSequence::ComplementBase
CSequence::countDerivedStates	Functor to count the number of derived states, excluding gaps and missing data, in a range of characters
Cfasta_constructors_fixture	\ file FastaConstructors.cc
Cfirst_is_equal< key, value >	Functor that checks for equality of first member of two pairs
CSequence::FST	Analysis of population structure using $F_{ST}$
CSequence::GarudStats
CSequence::Grantham	Grantham's distances
CSequence::HKAdata	Data from a single locus for an HKA test
CSequence::HKAresults	Results of calculations of the HKA test
CSequence::invalidPolyChar	This functor can be used to determine if a range contains characters that the SNP analysis routines in this library cannot handle gracefully
CSequence::Kimura80	Kimura's 2-parameter distance
CSequence::coalsim::marginal	The genealogy of a portion of a chromosome on which no recombination has occurred
CSequence::coalsim::newick_stream_marginal_tree	Class that provides a typecast-on-output of a marginal tree to a newick tree Example use:
CSequence::coalsim::newick_stream_marginal_tree_impl
CSequence::nmuts< counter >	Calculate the number of mutations at a polymorphic site
CSequence::coalsim::node	A point on a marginal tree at which a coalescent event occurs
CSequence::nSLiHS
CoutputFreq
CSequence::PairwiseLDstats	Pairwise linkage disequilibrium (LD) stats
CSequence::PolySIM	Analysis of coalescent simulation data
CSequence::PolySNP	Molecular population genetic analysis
▼CSequence::PolyTable	The base class for polymorphism tables
CSequence::PolySites	Polymorphism tables for sequence data
CSequence::PolyTableSlice< T >	A container class for "sliding windows" along a polymorphism table
CSequence::RedundancyCom95	Calculate redundancy of a genetic code using Comeron's counting scheme
CSequence::internal::row_view_< T >	Implementation details for Sequence::RowView and Sequence::ConstRowView
CSequence::coalsim::segment	A portion of a recombining chromosome
▼CSequence::Seq	Abstract interface to sequence objects
CSequence::Fasta	FASTA sequence stream
CSequence::fastq
CSequence::shortestPath	Calculate shortest path between 2 codons
CSequence::SimData	Data from coalescent simulations
CSequence::SimParams	Parameters for Hudson's simulation program
CSequence::SimpleSNP	SNP table data format
CSequence::SingleSub	Deal with codons differing at 1 position
CSequence::Sites	Calculate length statistics for divergence calculations
Cssh	Calculate nucleotide diversity from a polymorphic site
CSequence::stateCounter	Keep track of state counts at a site in an alignment or along a sequence
CSequence::StateCounts	Track character state occurrence at a site in a VariantMatrix
CSequence::Sums< T >
CSequence::ThreeSubs	Deal with codons differing at all 3 positions
CSequence::TwoSubs	Deal with codons differing at 2 positions
CSequence::VariantMatrix	Matrix representation of variation data
▼CSequence::WeightingScheme2	Abstract interface to weighting schemes when codons differ at 2 positions
CSequence::GranthamWeights2	Weights paths by Grantham's distances for codons differing at 2 sites
CSequence::Unweighted2	Weights all pathways equally
▼CSequence::WeightingScheme3	Abstract interface to weighting schemes when codons differ at 3 positions
CSequence::GranthamWeights3	Weights paths by Grantham's distances for codons differing at 3 sites
CSequence::Unweighted3	Weights all pathways equally