pyemma.msm.markov_model

pyemma.msm.markov_model(P, dt='1 step')

Markov model with a given transition matrix

Returns a MSM that contains the transition matrix and allows to compute a large number of quantities related to Markov models.

Parameters:

• P (ndarray(n,n)) – transition matrix
• dt (str, optional, default='1 step') –

  Description of the physical time corresponding to the lag. May be used by analysis algorithms such as plotting tools to pretty-print the axes. By default ‘1 step’, i.e. there is no physical time unit. Specify by a number, whitespace and unit. Permitted units are (* is an arbitrary string):

  ‘fs’, ‘femtosecond*’

  ‘ps’, ‘picosecond*’

  ‘ns’, ‘nanosecond*’

  ‘us’, ‘microsecond*’

  ‘ms’, ‘millisecond*’

  ‘s’, ‘second*’

Returns:

Return type:

A MSM object containing a transition matrix and various other MSM-related quantities.

See also

MSM()

A MSM object