Are there any online tutorials (documents) for implementing genefu to perform subtype class prediction using several e.g. Hu-133A GEO breast ca datasets? Thx, LP Houston Methodist. Leading Medicine. Ranked by U.S.News & World Report as one of America's "Best Hospitals" in 13 specialties. Named to FORTUNE? Magazine's "100 Best Companies to Work For?" list eight years in a row. Designated as a Magnet hospital for excellence in nursing. Visit us at houstonmethodist.org. Follow us at twitter.com/MethodistHosp and www.facebook.com/HoustonMethodist ***CONFIDENTIALITY NOTICE*** This e-mail is the property of Houston Methodist Hospital and/or its relevant affiliates and may contain restricted and privileged material for the sole use of the intended recipient(s). Any review, use, distribution or disclosure by others is strictly prohibited. If you are not the intended recipient (or authorized to receive for the recipient), please contact the sender and delete all copies of the message. Thank you.

Hi, There is no tutorial (yet) available but it will come early next year. In the meantime, you can take a look at the analysis pipeline and the code published with the following publication: Haibe-Kains, B., Desmedt, C., Loi, S. M., Culhane, A. C., Bontempi, G., Quackenbush, J. F., & Sotiriou, C. (2012). A three-gene model to robustly identify breast cancer molecular subtypes. Journal of the National Cancer Institute, 104(4), 311–325. doi:10.1093/jnci/djr545 Hope this helps. Best regards, --- Benjamin Haibe-Kains On Nov 8, 2013, at 14:38 , Levi Waldron <levi.waldron@hunter.cuny.edu> wrote: > FYI in case you're not watching the BioC listserv... > > > ---------- Forwarded message ---------- > From: Peterson, Leif <lepeterson@houstonmethodist.org> > Date: Fri, Nov 8, 2013 at 1:23 PM > Subject: [BioC] PAM-50 genefu example with Hu-133A GEO datasets > To: "bioconductor@r-project.org" <bioconductor@r-project.org> > > > > Are there any online tutorials (documents) for implementing genefu to > perform subtype class prediction using several e.g. Hu-133A GEO breast > ca datasets? > > Thx, LP > > Houston Methodist. Leading Medicine. > > Ranked by U.S.News & World Report as one of America's "Best Hospitals" > in 13 specialties. Named to FORTUNE® Magazine's "100 Best Companies to > Work For®" list eight years in a row. Designated as a Magnet hospital > for excellence in nursing. Visit us at houstonmethodist.org. Follow us > at twitter.com/MethodistHosp and www.facebook.com/HoustonMethodist > > ***CONFIDENTIALITY NOTICE*** This e-mail is the property of Houston > Methodist Hospital and/or its relevant affiliates and may contain > restricted and privileged material for the sole use of the intended > recipient(s). Any review, use, distribution or disclosure by others is > strictly prohibited. If you are not the intended recipient (or > authorized to receive for the recipient), please contact the sender > and delete all copies of the message. Thank you. > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > > > -- > Levi Waldron > Assistant Professor of Biostatistics > Hunter College School of Urban Public Health > City University of New York > 2180 3rd Ave Rm 538 > New York NY 10035-4003 > 212-396-7747 [[alternative HTML version deleted]]