Hi, If you have EMBOSS installed you should try degapseq. Galaxy emboss tools are available in the tool shed. HTH, Marc ________________________________________ From: galaxy-dev-bounces@lists.bx.psu.edu [galaxy-dev-bounces@lists.bx.psu.edu] on behalf of Deepthi Theresa [deepthitheresa@gmail.com] Sent: Thursday, September 27, 2012 9:45 PM To: galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] collapse FASTA

Hi Galaxy team,

I tried to do collapse FASTA sequences for removing the duplicate reads. but error occured due to the lowercase letters at both the ends of the sequences. Is there any option available to clean my reads? some of my reads contains hyphen too.

Thanks, D.

-- ----------------------------------------------------------------------------------------------------------------

Deepthi Theresa Thomas Kannanayakal 1919 University Drive NW, Apt. No. E104 T2N 4K7 Calgary, Alberta Canada

Ph: (403) 483 7409, (403) 618 5956 Email: deepthitheresa@gmail.commailto:deepthitheresa@gmail.com

________________________________________ THIS E-MAIL MESSAGE IS INTENDED ONLY FOR THE USE OF THE INDIVIDUAL OR ENTITY TO WHICH IT IS ADDRESSED AND MAY CONTAIN INFORMATION THAT IS PRIVILEGED, CONFIDENTIAL AND EXEMPT FROM DISCLOSURE. If the reader of this E-mail message is not the intended recipient, you are hereby notified that any dissemination, distribution or copying of this communication is strictly prohibited. If you have received this communication in error, please notify us immediately at ablynx@ablynx.com. Thank you for your co-operation. "NANOBODY" and "NANOCLONE" are registered trademarks of Ablynx N.V. ________________________________________