StochHMM::lexicalTable Member List

This is the complete list of members for StochHMM::lexicalTable, including all inherited members.

addTrack(track *, int)	StochHMM::lexicalTable
alphabets	StochHMM::lexicalTable	private
array_size	StochHMM::lexicalTable	private
assignTable(std::vector< std::vector< double > > *, valueType)	StochHMM::lexicalTable
calculateArrayIndex(std::vector< uint8_t > &kmer)	StochHMM::lexicalTable	private
calculateIndexFromDecomposed(std::vector< uint8_t > &word)	StochHMM::lexicalTable	private
convertIndex(size_t, size_t)	StochHMM::lexicalTable	private
counts	StochHMM::lexicalTable	private
createTable(int rows, int columns, int pseudocount, valueType typ)	StochHMM::lexicalTable
decompose(size_t row, size_t column, std::vector< uint8_t > &letters)	StochHMM::lexicalTable	private
decompose(size_t index, std::vector< uint8_t > &letters)	StochHMM::lexicalTable	private
decompose_sequence	StochHMM::lexicalTable	private
decompose_values	StochHMM::lexicalTable	private
dimensions	StochHMM::lexicalTable	private
expand_ambiguous(std::vector< uint8_t > &letters, std::vector< double > &expanded)	StochHMM::lexicalTable	private
expand_ambiguous(std::vector< std::vector< uint8_t > > *words, size_t letter)	StochHMM::lexicalTable	private
getAlphaSize()	StochHMM::lexicalTable	inline
getAlphaSize(size_t i)	StochHMM::lexicalTable	inline
getAmbDefinedScore()	StochHMM::lexicalTable	inline
getAmbiguousScore(std::vector< uint8_t > &letters)	StochHMM::lexicalTable	private
getAmbScoringType()	StochHMM::lexicalTable	inline
getCountsTable()	StochHMM::lexicalTable
getLogEmm()	StochHMM::lexicalTable	inline
getLogProbabilityTable()	StochHMM::lexicalTable
getNumberOfAlphabets()	StochHMM::lexicalTable	inline
getOrder()	StochHMM::lexicalTable	inline
getOrder(size_t i)	StochHMM::lexicalTable	inline
getProbabilityTable()	StochHMM::lexicalTable
getReducedOrder(sequences &seqs, size_t position)	StochHMM::lexicalTable
getReducedOrder(sequence &seq, size_t position)	StochHMM::lexicalTable
getTrack(size_t iter)	StochHMM::lexicalTable	inline
getValue(sequences &, size_t)	StochHMM::lexicalTable
getValue(sequence &, size_t)	StochHMM::lexicalTable
incrementCounts(size_t word_index, size_t char_index)	StochHMM::lexicalTable	inline
incrementCountsDouble(size_t word_index, size_t char_index, double val)	StochHMM::lexicalTable	inline
init_array_dimension_values()	StochHMM::lexicalTable	private
init_table_dimension_values()	StochHMM::lexicalTable	private
initialize_emission_table()	StochHMM::lexicalTable
lexicalTable()	StochHMM::lexicalTable
log_emission	StochHMM::lexicalTable	private
logProb	StochHMM::lexicalTable	private
low_order_emissions	StochHMM::lexicalTable	private
low_order_info	StochHMM::lexicalTable	private
max_order	StochHMM::lexicalTable	private
max_unambiguous	StochHMM::lexicalTable	private
number_of_tracks	StochHMM::lexicalTable	private
order	StochHMM::lexicalTable	private
print()	StochHMM::lexicalTable
prob	StochHMM::lexicalTable	private
setUnkScore(double val)	StochHMM::lexicalTable	inline
setUnkScoreType(unknownCharScoringType type)	StochHMM::lexicalTable	inline
stringify()	StochHMM::lexicalTable
stringifyAmbig()	StochHMM::lexicalTable
subarray_position	StochHMM::lexicalTable	private
subarray_sequence	StochHMM::lexicalTable	private
subarray_value	StochHMM::lexicalTable	private
trackSize()	StochHMM::lexicalTable	inline
transferValues(std::vector< bool > &transferred)	StochHMM::lexicalTable	private
trcks	StochHMM::lexicalTable	private
unknownDefinedScore	StochHMM::lexicalTable	private
unknownScoreType	StochHMM::lexicalTable	private
x_subarray	StochHMM::lexicalTable	private
y_dim	StochHMM::lexicalTable	private
y_subarray	StochHMM::lexicalTable	private
~lexicalTable()	StochHMM::lexicalTable