Extract local PBM scores / response for a list of PBMs

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

Usage

pbm_list.gextract_local(
  pbm_list,
  intervals,
  response = FALSE,
  scaling_q = NULL
)

Arguments

pbm_list

A list of PBM objects

intervals

Genomic intervals to extract

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