I need to create a heatmap that allows me to zoom in on clusters of
genes in order to identify which genes are included.  The standard
heatmap makes it difficult to identify the genes if there are too many.

 

I am using the hopach package to create the files needed for MapleTree,
but I've run into two problems.

 

I am using the chapter on cluster analysis by Pollard and van der Laan
in Gentleman, et al Bioinformatics and computational biology solutions
using R and Bioconductor as a guide.

 

1.	my data is from an Affymetrix chip and I need to create a fill
similar to the gene.desc with the gene description from annTable.
2.	the function hopach2tree is not included in the hopach package
for R 2.3.0 on a Windows XP platform. 

 

Has anyone figured out how to create the necessary file with gene
descriptions for an Affymetrix chip?  And, where can I get hopach2tree
for the Window XP system.

 

Thank you,

 

John E. Cornell, Ph.D.

Expectation, hope, intention toward possibility that has still not
become: this is not only a basic feature of human consciousness, but,
..., a basic determination within objective reality as a whole.

--Ernst Bloch

--The Principle of Hope (Vol. 1)

 


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