Hi, On Fri, Mar 26, 2010 at 7:12 AM, karuna m <m_karuna2...@yahoo.com> wrote: > hi all, > I am doing hierarchical clustering using similarity measures for binary data > using package ade4 and hclust function. For method=8 and method = 9 of > dist.binary, I am getting Na values. Hence, hclust function is giving error > as Error in hclust(d8, method = "ward") : NA/NaN/Inf in foreign function > call (arg 11). I think the fact that due to zero in the denominator of the > similarity measure formula (sqrt(a+b)(a+c)(b+d)(d+c)). Could someone please > help me to rectify the error?
In your mind, what would the "correct" distance be between your two example if a zero does end up in the denominator? Meaning: I guess R doesn't know what to do, and if you have some intuition, perhaps you can tell it. For instance, how bad would it be if you just added 1 (or some smaller number) to all the points in your data so that you can't get zeroes in the denominator? -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
