I haven't use bowite before, sorry. I used GMap extensivly to map sRNA to genomes like rice, and it works fine. bear in mind that sRNA is around 20 bp. I don't a problem in your case, but a trial is needed to judge it
On Fri, Feb 6, 2009 at 11:12 AM, Aengus Stewart < [email protected]> wrote: > > hmmmmmm > > bowtie is on the list to build and test, but not for this problem. > > Can you assure me that both bowtie and GMap will work with 12bp sequences? > > > Regards > > Aengus > > -- > ----------------------------------------------------------------------- > Aengus Stewart > Head of Bioinformatics and BioStatistics > Bioinformatics and BioStatistics Tel: +44 (0)20 7269 3679 > Cancer Research UK, Lincoln's Inn Fields, Holborn, London, WC2A 3PX, UK > ----------------------------------------------------------------------- > > This electronic message contains information which may be privileged and > confidential. The information is intended to be for the use of the > individual(s) or entity named above. Be aware that any third party > disclosure, distribution, copying or use of this communication, without > prior permission, is strictly prohibited. > > This communication is from Cancer Research UK. Our website is at > www.cancerresearchuk.org. We are a charity registered under number 1089464 > and a company limited by guarantee registered in England & Wales under > number 4325234. Our registered address is 61 Lincoln's Inn Fields, London > WC2A 3PX. Our central telephone number is 020 7242 0200. > > This communication and any attachments contain information which is > confidential and may also be privileged. It is for the exclusive use of > the intended recipient(s). If you are not the intended recipient(s) please > note that any form of disclosure, distribution, copying or use of this > communication or the information in it or in any attachments is strictly > prohibited and may be unlawful. If you have received this communication in > error, please notify the sender and delete the email and destroy any copies > of it. > > E-mail communications cannot be guaranteed to be secure or error free, as > information could be intercepted, corrupted, amended, lost, destroyed, > arrive late or incomplete, or contain viruses. We do not accept liability > for any such matters or their consequences. Anyone who communicates with us > by e-mail is taken to accept the risks in doing so. > _______________________________________________ > EMBOSS mailing list > [email protected] > http://lists.open-bio.org/mailman/listinfo/emboss > -- -------------------------------------------------------- Magdy S. Alabady, PhD Energy Bioscience Institute (EBI) Institute for Genome Biology (IGB) University of Illinois At Urbana-Champaign, Illinois ------------------------------------------------------ Imagination is more important than knowledge. For knowledge is limited, whereas imagination embraces the entire world, stimulating progress, giving birth to evolution.. .....Albert Einstein ------------------------------------------------------------- _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
