msmtools.dtraj.sample_indexes_by_distribution

msmtools.dtraj.sample_indexes_by_distribution(indexes, distributions, nsample)

Samples trajectory/time indexes according to the given probability distributions

Parameters:

• indexes (list of ndarray( (N_i, 2) )) – For each state, all trajectory and time indexes where this state occurs. Each matrix has a number of rows equal to the number of occurrences of the corresponding state, with rows consisting of a tuple (i, t), where i is the index of the trajectory and t is the time index within the trajectory.
• distributions (list or array of ndarray ( (n) )) – m distributions over states. Each distribution must be of length n and must sum up to 1.0
• nsample (int) – Number of samples per distribution. If replace = False, the number of returned samples per state could be smaller if less than nsample indexes are available for a state.

Returns:

indexes – List of the sampled indices by distribution. Each element is an index array with a number of rows equal to nsample, with rows consisting of a tuple (i, t), where i is the index of the trajectory and t is the time index within the trajectory.

Return type:

length m list of ndarray( (nsample, 2) )