On Apr 28, 6:30 am, Nick Craig-Wood <[EMAIL PROTECTED]> wrote:
> blaine <[EMAIL PROTECTED]> wrote:
> > I'm trying to write a string matching algorithm for genomic
> > sequences. I'm pulling out Genes from a large genomic pattern, with
> > certain start and stop codons on either side. This is s
blaine wrote:
Hey everyone,
For the regular expression gurus...
I'm trying to write a string matching algorithm for genomic
sequences. I'm pulling out Genes from a large genomic pattern, with
certain start and stop codons on either side. This is simple
enough... for example:
start = AUG sto
Regular expressions for that sort of thing can get *really* big. The
most efficient way would be to programmatically compose the regular
expression to be as exact as possible.
import re
def permutation(lst):
From http://labix.org/snippets/permutations/. Computes permutations
blaine <[EMAIL PROTECTED]> wrote:
> I'm trying to write a string matching algorithm for genomic
> sequences. I'm pulling out Genes from a large genomic pattern, with
> certain start and stop codons on either side. This is simple
> enough... for example:
>
> start = AUG stop=AGG
> BBAUG
In article
<[EMAIL PROTECTED]>,
blaine <[EMAIL PROTECTED]> wrote:
> Hey everyone,
> For the regular expression gurus...
>
> I'm trying to write a string matching algorithm for genomic
> sequences.
I strongly suggest you stop trying to reinvent the wheel and read up on the
Biopython project
On Apr 27, 10:24 pm, [EMAIL PROTECTED] wrote:
> On Apr 27, 8:31 pm, blaine <[EMAIL PROTECTED]> wrote:
>
>
>
> > Hey everyone,
> > For the regular expression gurus...
>
> > I'm trying to write a string matching algorithm for genomic
> > sequences. I'm pulling out Genes from a large genomic patter
On Apr 27, 8:31 pm, blaine <[EMAIL PROTECTED]> wrote:
> Hey everyone,
> For the regular expression gurus...
>
> I'm trying to write a string matching algorithm for genomic
> sequences. I'm pulling out Genes from a large genomic pattern, with
> certain start and stop codons on either side. This
Hey everyone,
For the regular expression gurus...
I'm trying to write a string matching algorithm for genomic
sequences. I'm pulling out Genes from a large genomic pattern, with
certain start and stop codons on either side. This is simple
enough... for example:
start = AUG stop=AGG
BBAUGW
