Sorry. I think you need the argument distfun=as.dist. E.g., heatmap(x, distfun=as.dist, symm=TRUE, scale="none")
Andy > From: Liaw, Andy > > I believe you want to pass the (symmetric) matrix as is, > rather than wrapped > in as.dist(). E.g., > > x <- as.matrix(dist(matrix(rnorm(100), 20, 5))) > heatmap(x, symm=TRUE, scale="none") > > HTH, > Andy > > > From: Paul Lepp > > > > Dear R wizards, > > Hopeful someone can help me with what I believe is a > > pretty simple task. I > > pretty new to R so some (much) of the obvious escapes me. How > > do I get a > > distance matrix into heatmap? What do I tell distfun if what > > I'm trying to > > map is already an ordered distance matrix? I tried >heatmap(x, > > distfun=as.dist(x)) where x is the distance matrix but R gave > > me an error. > > Thanks in advance for any help. > > > > Paul Lepp > > > > `-:-. ,-;"`-:-. ,-;"`-:-. ,-;"`-:-. ,-;"`-:-. ,-;"`-:-. > > `=`,'=/ `=`,'=/ `=`,'=/ `=`,'=/ `=`,'=/ `=` > > >==/ >==/ >==/ >==/ >==/ > > ,=,-<=`. ,=,-<=`. ,=,-<=`. ,=,-<=`. ,=,-<=`. ,=, > > ,-'-' `-=_,-'-' `-=_,-'-' `-=_,-'-' `-=_,-'-' `-=_,-'-' > > Paul Lepp, Ph.D. Stanford School of Medicine > > > > VAPAHCS, 154T Dept. of Microbiology & Immunology > > 3801 Miranda Ave Stanford University > > Palo Alto, CA 94304 Stanford, CA > > (650) 493-5000 x66762 fax: > (650) 852-3291 > > http://cmgm.stanford.edu/~pwlepp [EMAIL PROTECTED] > > > > ______________________________________________ > > [EMAIL PROTECTED] mailing list > > https://stat.ethz.ch/mailman/listinfo/r-help > > PLEASE do read the posting guide! > > http://www.R-project.org/posting-guide.html > > > > > > ______________________________________________ > [EMAIL PROTECTED] mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide! > http://www.R-project.org/posting-guide.html > > > -------------------------------------------------------------- > ---------------- > Notice: This e-mail message, together with any attachments, > contains information of Merck & Co., Inc. (One Merck Drive, > Whitehouse Station, New Jersey, USA 08889), and/or its > affiliates (which may be known outside the United States as > Merck Frosst, Merck Sharp & Dohme or MSD and in Japan, as > Banyu) that may be confidential, proprietary copyrighted > and/or legally privileged. It is intended solely for the use > of the individual or entity named on this message. If you > are not the intended recipient, and have received this > message in error, please notify us immediately by reply > e-mail and then delete it from your system. > -------------------------------------------------------------- > ---------------- > ______________________________________________ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
