sample

RNAdist.sampling.ed_sampling.sample(sequence, nr_samples: int, md=None)

Samples structures for a sequence redundantly

Draws nr_samples structures and calculates the expected distance for all nucleotide pairs based on these.

Parameters:

• sequence (str) – RNA sequence as a string

• nr_samples (int) – How many samples should be drawn

• md (RNA.md) – ViennaRNA model details (Will automatically set uniq_ML to 1)

Returns:

N x N matrix

containing approximated expected distances from nucleotide i to j at matrix[i][j]

Return type:

np.ndarray