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File List
Here is a list of all documented files with brief descriptions:
[detail level 1234]
\-src
 o-lib
 |o-align
 ||o*consistency_aln.hppAlignment functions to be used in the consistency approach
 ||o*domain_aln.hppSeveral functions related to domain alignment
 ||o*fw_bw.hppThe forward and backward algorithms
 ||o*HMM.hppContains a HMM model
 ||o*Library.hppContains the Library class to handle pairwise matches
 ||\*seq_align.hpp
 |o-Annotation
 ||o*Domain.hppFile to contain the Domain class
 ||o*DomainArchitecture.hpp
 ||o*Gene.hpp
 ||\*SequenceFeatures.hpp
 |o-Basics
 ||o*basics.hppContains some tags to modify behaviors of some classes
 ||\*utils.hpp
 |o-clustering
 ||o*Tree.hppTree management
 ||\*Vector.hpp
 |o-Sequence
 ||o*DNASequence.hpp
 ||o*other_seq.hpp
 ||o*ProteinSequence.hppFile containing the ProteinSequence class
 ||o*ProteinSequenceSet.hpp
 ||o*Seq_functs.hppContains several functions related to Sequence modification
 ||o*Sequence.hppContains the Sequence class
 ||o*Sequence_Interface.hpp
 ||o*SequenceSet.hpp
 ||o*SequenceSet_basic.hpp
 ||o*SequenceSet_memsafe.hpp
 ||\*SplitSet.hpp
 |o-utils
 ||o*CRS_Mat.hppPFAM domain mat
 ||o*fast_math.hpp
 ||o*filesystem.hContains some filesystem functions
 ||o*Matrix.hpp
 ||o*Matrix1Line.hpp
 ||o*MatrixStack.hppFile to contain the MatrixStack class
 ||o*MDAT_Exceptions.hpp
 ||\*ThreadPool.hpp
 |\*doku.hpp
 o-programs
 |\-MDA
 | o*mda_pdf_out.hpp
 | \*options.hpp
 \-tests
  o*Align_test.hpp
  o*HMM_test.hpp
  o*Library_test.hpp
  o*Matrix_test.hpp
  o*Sequence_test.hpp
  \*SequenceSet_test.hpp