[NORDNS] [Bioperl-l] Script

[Brian Osborne]

Lobvi,

Bio::Tools::SeqWords does this, but only the non-overlapping occurrences.
You could modify the module and create a new method that found overlapping
occurrences. It's also possible that the motifs you're concerned with can't
overlap.

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Lobvi Matamoros
Sent: Monday, September 22, 2003 2:31 PM
To: bioperl-l at bioperl.org
Subject: [NORDNS] [Bioperl-l] Script


Hi to everyone:

I am trying to know how many times a particular amino acid motif occur in a
protein database, for instance NCCC,  in other words count that particular
motif. Does anyone have an script to perform that task or something close I
can change a little bit?.

Thanks for your help in advance

Lobvi Matamoros Fernández, Ph.D
Post-doctoral fellow

Centre de Recherche du CHUL
2705 Boul. Laurier, T3-80
Sainte-Foy (Québec)
G1V 4G2 CANADA
Tel: 418-6542261
FAX:418-654-2279

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