Extract local PBM scores / response for a list of PBMs given sequences

This function extracts local PBM scores for sequences and optionally computes the response for a list of PBMs.

Usage

pbm_list.compute_local(pbm_list, sequences, response = FALSE, scaling_q = NULL)

Arguments

pbm_list

A list of PBM objects

sequences

A vector of DNA sequences

response

Logical, whether to compute the response (default is FALSE)

scaling_q

Scaling quantile for normalization (default is NULL)

Value

A list of matrices containing extracted local energies for each PBM