[Bioperl-l] Writing bp_grep

[Hilmar Lapp]

And of course there's tacg (though I have never used it - not sure about its status):

Mangalam HJ (2002) tacg – a grep for DNA. BMC Bioinformatics 3:8
doi:10.1186/1471-2105-3-8

	-hilmar

On May 13, 2012, at 1:26 PM, Peter Cock wrote:

> On Sunday, May 13, 2012, Carnë Draug wrote:
> 
>> Hi everyone
>> 
>> I'm starting to write a grep tool for sequences (bp_grep). The idea is
>> to have something just like grep but for DNA and protein sequences
>> with most of the options that make sense in this context (print the
>> filename or sequence name only, position, without match search, count,
>> etc). I was wondering if anyone has any piece of code that could fit
>> in it or started something similar but just never finished.
>> 
>> Thanks,
>> Carnë
>> 
> 
> This sounds like EMBOSS preg,
> http://emboss.open-bio.org/wiki/Appdoc:Preg
> 
> I thought they had a nucleotide equivalent but I can't see
> it right now....
> 
> Peter
> 
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: Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
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