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
