This function computes the number of hits of a given motif in a set of intervals, separated by strand and direction.
Usage
compute_motif_directional_hits(pssm, intervals, size, pwm_threshold = 7)
Arguments
- pssm
A position-specific scoring matrix (PSSM) object.
- intervals
A data frame containing the genomic intervals to search for motif hits.
- size
The size of the intervals.
- pwm_threshold
The threshold for the PSSM score to consider a hit.
Value
A data frame containing the number of hits of the motif in each interval, separated by strand and direction. Column names are 'ml' (minus, left), 'mr' (minus, right), 'pl' (plus, left), 'pr' (plus, right).
