This function classifies breakpoints in terms of its proximity to tandem repeats (but can be generalised to any property whose coverage is binary).
Arguments
- gr_ob
GRanges object containing pairwise alignment
- tan
GRanges object containing tandem repeat (or characteristic of interest) coverage
- tol
range in which breakpoints will be classified as "near" to a tandem repeat
- query_tf
logical value that, if set to TRUE, will classify bps in query coordinates as opposed to reference (default)