[Bioperl-l] Re: counting nucleotides in a sequence

[nkuipers]

Parvesh,

Would it be appropriate to also take reading frames into consideration, as the 
residue profile for your ten-mers will likely differ by frame?  Or is this not 
relevant for your purposes.  Just a thought.

Cheers,

Nathanael Kuipers

>> > I am interested in calculating the nucleotides A,C, G and T
>> > in my sequence for every 10 nt window.
>> > So I need to write a code that will scan the sequence for every 10 nts
>> > like 1-10,11-20.
>> > preferably i can then stack the result in arrays and write this array
>> > to file.
>> > Can someone help me to do this using bioperl code please ?
>> > Thanks in advance for your help!
>> >
>> > Best wishes
>> > Parvesh

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Center for Biomedical Research
Dept. of Biology, University of Victoria
Victoria BC, Canada