I would start with Biostrings::matchPWM The function name sounds promising :)
Kasper On Tue, Jan 25, 2011 at 10:36 AM, Ivan Gregoretti <[email protected]> wrote: > Hello everybody, > > Introduction: > I have a Position Weigh Matrix that characterises the binding DNA > sequence of a novel transcription factor. > > Goal: > I want to find the genomic positions that are good matches for my PWM. > > Question: > What are my options among the Bioconductor packages? > > Thank you, > > Ivan > > > Ivan Gregoretti, PhD > National Institute of Diabetes and Digestive and Kidney Diseases > National Institutes of Health > 5 Memorial Dr, Building 5, Room 205. > Bethesda, MD 20892. USA. > Phone: 1-301-496-1016 and 1-301-496-1592 > Fax: 1-301-496-9878 > > _______________________________________________ > Bioc-sig-sequencing mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing > _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
