the closest gene to a breakpoint

Question

[Bogdan]

Dear all, please would you advise :

given a list of chromosomes coordinates (i.e. BREAKPOINTS), and the list of genes promoters (i.e. TSS), shall I use R/BioC, how could I get the closest gene TSS to a BREAKPOINT ? which function shall I use ?

I am looking for a similar function as closestBed in bedtools ...

thanks a lot,

-- bogdan

Answer 1

[h.mon]

nearest() from GenomicRanges.