Here is a list of all file members with links to the files they belong to:

- c -

• CHAR_BIT : bitwise_ops.h
• commandline : StochHMM.cpp

- d -

• default_functions : StochHMM.cpp

- i -

• import_model() : StochHMM.cpp
• import_sequence() : StochHMM.cpp

- j -

• jobs : StochHMM.cpp

- m -

• main() : MotifScorer.cpp , StochHMM.cpp
• MAX_ALLOWABLE : options.h
• MAX_BUFFER : trainingSeq.h
• MIN_BUFFER : trainingSeq.h

- o -

• opt : StochHMM.cpp
• opt_size : StochHMM.cpp

- p -

• perform_nbest_decoding() : StochHMM.cpp
• perform_posterior() : StochHMM.cpp
• perform_stochastic_decoding() : StochHMM.cpp
• perform_viterbi_decoding() : StochHMM.cpp
• PI : distributions.h , statistics.h , stochMath.h
• print_limited_posterior() : StochHMM.cpp
• print_output() : StochHMM.cpp
• print_posterior() : StochHMM.cpp

- s -

• SIZE_MAX : bitwise_ops.h , stochMath.h , text.h
• STATE_MAX : state.h , StochHMM.cpp

- u -

• UINT16_MAX : stochMath.h
• usage : StochHMM_usage.h , MotifScorer.h