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the closest gene to a breakpoint

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

bedtools r
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updated by h.mon h.mon • written by Bogdan Bogdan

1 answer

nearest() from GenomicRanges.

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written by h.mon h.mon

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