[Genome] Question about intersecting two BED files

[Mark Diekhans]

The overlapSelect command will do this.

mark

Stein Aerts <stein.aerts at med.kuleuven.be> writes:
> I wonder whether there is a command-line program available to intersect 
> two BED files, similarly to what is done in the Table Browser with the 
> intersect function? The output would be, for example, all records in BED 
> file 1 that have any overlap with BED file 2.
> 
> Many thanks in advance,
> Stein Aerts
> 
> -- 
> Stein Aerts, PhD
> Laboratory of Neurogenetics
> Department of Molecular and Developmental Genetics
> VIB - University of Leuven
> Herestraat 49, bus 602
> 3000 Leuven, Belgium
> Tel. +32(16)330132
> Fax. +32(16)347190
> http://www.med.kuleuven.ac.be/cme-mg/lng/
> 
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