compute_clote

RNAdist.dp.cpedistance.compute_clote(fc)

Uses a ViennaRNA fold_compound to calculate the clote-ponty matrix.

Clote, P., Ponty, Y., & Steyaert, J. M. (2012). Expected distance between terminal nucleotides of RNA secondary structures. Journal of mathematical biology, 65(3), 581-599.

https://doi.org/10.1007/s00285-011-0467-8

Parameters:

fc (RNA.fold_compund) – Fold compound object of ViennaRNA

Returns:

N x N matrix

containing expected distance from nucleotide 0 to n at matrix[0][-1]

Return type:

np.ndarray