Does anyone know if there is a method available to read in cluster files (cdt, atr and gtr)? I found one method (http://bioinformatics.holstegelab.nl/manuals/R/library/integromicsMethods/html/iMethods.read.tv.html), but it doesn't seem to create an object that can be used by "heatmap."
The reason I'd like to read in cluster files rather than cluster within R is that we use Cluster 3.0 and each clustering suite behaves differently with certain algorithms (e.g. "centroid-linkage" in cluster 3.0 vs "average-linkage" in Eisen's Cluster 2.0) as well as the order in which the tree is actually printed (doesn't change the meaning, but I prefer to continue with what we have been using). Anyway, if anyone knows a package that will read in cluster files in a format that I can use to create a heatmap using the "heatmap" method, I would greatly appreciate the info. Or, if anyone know a way to add the equivalent of ColSideColors from "heatmap" in Java TreeView, that would be equally helpful. Thanks! Mark ______________________________________________ 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.
