- class openpathsampling.analysis.tis.StandardTransitionProbability(transition, tcp_method, ctp_method)
Calculate the transition probability according to the TCP/CTP split.
The transition probability is the probability that a path that starts from interface A_0 ends in some other state B, and is denoted P(B|A_0). What we call the “standard” approach to calculate this splits that probability into P(B|A_0) = P(B|A_m) P(A_m|A_0), where the first term in the product is the
ConditionalTransitionProbabilityand the second term is determined by the
TotalCrossingProbability. In practice, one instance of this object is created for each transition.
TISTransition) – the transition to calculate the transition probability for
TotalCrossingProbability) – the object to calculate the total crossing probability function; many details can be modified here including the details of the histograms that are generated or of the method used to combine the histograms
ConditionalTransitionProbability) – the object to calculate the conditional transition probability (details on which ensembles and which states to analyze can be modified here)
- __init__(transition, tcp_method, ctp_method)
__init__(transition, tcp_method, ctp_method)
Return a list of args of the __init__ function of a class
Return the most parent class actually derived from StorableObject
Perform the analysis, using steps as input.
Combine two sets of results from this analysis.
Return number of objects subclassed from StorableObject still in memory
Return a list of all subclassed objects
Set the objects name to be immutable.
Reconstruct an object from a dictionary representaiton
Calculate results from intermediates.
Calculate results from a weighted trajectories dictionary.
Return the index which is used for the object in the given store.
Name an unnamed object.
Returns a dictionary of all storable objects
(De-)Activate observing creation of storable objects
Convert object into a dictionary representation
Return the base class
Return the name of the base class
Return the class name as a string
Return the default name.
True if this object has a custom name.
Return the current name of the object.