ziphmm. An very brief and fast HMM implementation!

zipHMM-1.0.1\CMakeLists.txt
............\COPYING
............\example.hmm
............\........out\data_structure
............\...........\nStates2seq\2.seq
............\example.seq
............\README
............\test_data\data_structure_test\data_structure
............\.........\...................\nStates2seq\16.seq
............\.........\...................\...........\32.seq
............\.........\..................._post\data_structure
............\.........\........................\nStates2seq\16.seq
............\.........\........................\...........\32.seq
............\.........\postTest1.devices
............\.........\simpleGeneFinder.hmm
............\.........\simpleGeneFinder.seq
............\.........\test0.hmm
............\.........\test0.seq
............\.........\test1.devices
............\.........\test1.hmm
............\.........\test1.seq
............\.........\test2.hmm
............\.........\test2.seq
............\.........\test2_10000.seq
............\.........\test2_20.seq
............\.........\test3.hmm
............\.........\test3.seq
............\.........\test4.hmm
............\.........\test4.seq
............\.........\test4_10000.seq
............\.........\test5.hmm
............\.........\test5.seq
............\.........\test5_10000.seq
............\.........\test5_20.seq
............\.........\test6.hmm
............\.........\test6.seq
............\.........\test6_10000.seq
............\.........\test6_100000.seq
............\.........\test8States.hmm
............\.........\test8States.seq
............\.........\testNoSequence.hmm
............\.........\testNoSequence.seq
............\.........\testNoSolution.hmm
............\.........\testNoSolution.seq
............\.........\testNoStates.hmm
............\.........\testNoStates.seq
............\.........\testOffByOneEm.hmm
............\.........\testOffByOneEm.seq
............\.........\testOffByOneTrans.hmm
............\.........\testOffByOneTrans.seq
............\.........\testOneState.hmm
............\.........\testOneState.seq
............\.........\testVectorReserve.hmm
............\.........\testVectorReserve.seq
............\.........\testZeroAdd.hmm
............\.........\testZeroAdd.seq
............\zipHMM\build_forwarder.cpp
............\......\calibrate.cpp
............\......\calibrate.hpp
............\......\CMakeLists.txt
............\......\cpp_example.cpp
............\......\debug.cpp
............\......\debug.hpp
............\......\forward.cpp
............\......\forwarder.cpp
............\......\forwarder.hpp
............\......\generate_01_seq.cpp
............\......\generate_biased_hmm.cpp
............\......\generate_hmm.cpp
............\......\generate_seq.cpp
............\......\hmm_io.cpp
............\......\hmm_io.hpp
............\......\hmm_utils.cpp
............\......\hmm_utils.hpp
............\......\io_utils.cpp
............\......\io_utils.hpp
............\......\matrix.cpp
............\......\matrix.hpp
............\......\performance_description.cpp
............\......\performance_description.hpp
............\......\posterior_decoding.cpp
............\......\posterior_decoding.hpp
............\......\prob_spaces.cpp
............\......\prob_spaces.hpp
............\......\ProcessingDevice.hpp
............\......\PThreadProcessingDevice.cpp
............\......\PThreadProcessingDevice.hpp
............\......\py_forward.py
............\......\python_example.py
............\......\python_test.py
............\......\pyZipHMM.cpp
............\......\pyZipHMM.py
............\......\seq_io.cpp
............\......\seq_io.hpp
............\......\simple_forwarder.hpp
............\......\simple_stop_forwarder.cpp
............\......\simple_stop_forwarder.hpp
............\......\Stage1JobControl.cpp
............\......\Stage1JobControl.hpp
............\......\Stage2JobControl.hpp

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