test if junction is canonical junction

is_canonical(junc_id, ref_junc, exons_gr)

Arguments

junc_id: vector of junction id to test
ref_junc: vector of canonical reference junctions
exons_gr: GRanges of canonical exons

Value

logical vector of same length as junc_id indicating if the input junc_id is in the set of reference junctions ref_junc or consists of two directly adjacent positions (intron retention) and overlaps (completely within) a canonical exon from exons_gr.