msmbuilder.metrics.AtomPairs.all_to_all

AtomPairs.all_to_all(prepared_traj1, prepared_traj2)

Get a matrix of distances from all frames in one traj to all frames in another

Parameters:

prepared_traj1 : ndarray

First prepared trajectory

prepared_traj2 : ndarray

Second prepared trajectory

Returns:

distances : ndarray

A 2D array of shape len(preprared_traj1) * len(preprared_traj2)