msmbuilder.metrics.baseclasses.AbstractDistanceMetric.all_pairwise¶
- AbstractDistanceMetric.all_pairwise(prepared_traj)[source]¶
Calculate condensed distance metric of all pairwise distances
See scipy.spatial.distance.squareform for information on how to convert the condensed distance matrix to a redundant square matrix
Parameters: prepared_traj : array_like
Prepared trajectory
Returns: Y : ndarray
A 1D array containing the distance from each frame to each other frame
See also
fast_pdist, scipy.spatial.distance.squareform