MDA
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Class Hierarchy
This inheritance list is sorted roughly, but not completely, alphabetically:
[detail level 12]
oCbinary_function
|oCMDAT::Input_Sort< T >
|oCMDAT::Name_Sort< T >
|\CMDAT::Seq_Sort< T >
oCMDAT::CRS_Mat< DataType >A class to store the Pfam domain matches in a compact way
oCMDAT::DomainClass to represent a domain
oCMDAT::DomainArchitectureRepresents a set of domains
oCMDAT::DomainArchitectureSetClass to store several Architectures
oCGene
oCMDAT::HMM
oCMDAT::hmm_match
oCMDAT::Library< DataType >A Library object stores pairwise matches and is able to do the consistency extension
oCMDAT::Match_pointSimple struct to save a match and its score
oCMDAT::Matrix< DataType >A simple class to produce 2 dimensional matrices
oCMDAT::Matrix1Line< DataType >A simple class to produce 2 dimensional matrices
oCMDAT::Matrix< float >
oCMDAT::Matrix< int >
oCMDAT::Matrix< short >
oCMDAT::MatrixStack< n, DataType >A simple class to contain a set of 2 dimensional matrices
oCMRNA
oCMDAT::Opt_DAStructure to contain the MDA options
oCOpt_dom
oCOpt_general
oCOpt_graphic
oCOpt_msa
oCruntime_error
|oCAlignment_ExceptionException thrown when trying to read a file (e.g. format problems)
|\CMDAT_IO_ExceptionException thrown for failed opening of a file
oCMDAT::SequenceA generic class to represent a plain sequence
|oCMDAT::DNASequenceA special class for DNA sequences
|\CMDAT::ProteinSequenceA class to represent a protein sequence
oCMDAT::Sequence_Interface
oCMDAT::SequenceFeatures< FeatureType >
oCMDAT::SequenceFeatures< int >
oCMDAT::SequenceGapFunc< Data >
oCMDAT::SequenceSetBase< SequenceType, MemoryType >The base class for a SequenceSet
oCMDAT::SequenceSetBase< ProteinSequence, MemoryType >
|\CMDAT::ProteinSequenceSet< MemoryType >A SequenceSet object for sequences of type ProteinSequence
oCMDAT::SequenceSetBase< SequenceType, MemSafe >This SequenceSet class uses less memory than the normal one
oCMDAT::SequenceSetGapFunc
oCMDAT::SingleSequenceFeature
oCSingleSequenceFeature
oCMDAT::SplitSet< DataType >
oCMDAT::StrTokA string tokenizer class which in difference to standard C is thread save
oCMDAT::Tag< T >
oCTestSuite
|oCAlign_Test
|oCHMM_Test
|oCLibrary_Test
|oCMatrix_Test
|oCSequence_Test
|\CSequenceSet_Test
oCThreadPool< T >
oCMDAT::TreeThis class provides several methods to read, compute and manipulate trees
oCMDAT::TreeNode
\CMDAT::Vector< DataType >