[Bioperl-l] Any module for chromosome region analysis ?
shameer at ncbs.res.in
Wed Feb 24 14:31:06 EST 2010
Thanks for the pointers.
> Hi Shameer,
> You could do this using Bio::Range, but that only allows you to
> determine the intersection between two ranges at once, so you'd need to
> do the calculation in several stages. It also doesn't have a method to
> determine positions that are unique to one of the ranges (although it
> possibly should).
> As this isn't a problem that is specific to biology, it's also worth
> hunting around on CPAN for modules that may be useful.
> Set::IntSpan::Fast looks suitable, particularly the intersection and
> diff methods. I haven't tried it, though.
> On 24/02/2010 16:59, K. Shameer wrote:
>> Hello all,
>> I am looking for a standard way / bioperl module that can take up
>> different chromosome regions (in basepairs) and give the unique and
>> For example these are the regions and I need to get the common regions
>> (start - end) among all 5 regions:
>> 24328000 - 29166946
>> 25388351 - 27114603
>> 22310186 - 25239677
>> 28511024 - 29638159
>> 23729632 - 26385029
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