CPHiddenMarkovModel Struct Reference

#include <hmm.h>

Data Fields
double *	d
int	J
int	K
int	M
int	n
int **	phi
int	Q
double *	q
gsl_rng_type *	random_number_type
gsl_rng *	rng
double	s [2]
long	seed
double	sigma
double **	tau
double *	u
double *	z

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Detailed Description

Continuous Profile Model struct. See Listgarten et al. 2005.

Definition at line 49 of file hmm.h.

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Field Documentation

double* CPHiddenMarkovModel::d

(d1, ..., di, ..., dJ); probabilities to do a jump of length i

Definition at line 60 of file hmm.h.

int CPHiddenMarkovModel::J

maximum number of jumps in warping

Definition at line 59 of file hmm.h.

int CPHiddenMarkovModel::K

number of trials

Definition at line 50 of file hmm.h.

int CPHiddenMarkovModel::M

number of samples in latent trace

Definition at line 52 of file hmm.h.

int CPHiddenMarkovModel::n

number of samples per trial

Definition at line 51 of file hmm.h.

int** CPHiddenMarkovModel::phi

(K x N) amplitude states for each trial; q(phi^k_i) is the actual amplitude

Definition at line 64 of file hmm.h.

int CPHiddenMarkovModel::Q

number of amplitude states

Definition at line 54 of file hmm.h.

double* CPHiddenMarkovModel::q

(q1,...,q_Q) amplitude factor states

Definition at line 55 of file hmm.h.

gsl_rng_type* CPHiddenMarkovModel::random_number_type

GSL-random number generator type

Definition at line 69 of file hmm.h.

gsl_rng* CPHiddenMarkovModel::rng

the GSL random number generator

Definition at line 70 of file hmm.h.

double CPHiddenMarkovModel::s[2]

(s0, s1); probabilities to go up/down one amplitude state

Definition at line 61 of file hmm.h.

long CPHiddenMarkovModel::seed

seed for the rng

Definition at line 71 of file hmm.h.

double CPHiddenMarkovModel::sigma

noise factor; standard deviation in emission prob. density

Definition at line 67 of file hmm.h.

double** CPHiddenMarkovModel::tau

(K x N) warping for each trial w.r.t. z

Definition at line 63 of file hmm.h.

double* CPHiddenMarkovModel::u

K-vector; global amplitude multiplication factor

Definition at line 57 of file hmm.h.

double* CPHiddenMarkovModel::z

M-vector; latent trace;

Definition at line 66 of file hmm.h.

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The documentation for this struct was generated from the following file:

• src/hmm.h