Bioconductors,

 

Here are the package versions I'm currently using:

>packageDescription("affy", field="Version")

[1] "1.6.7"

> packageDescription("mouse4302", field="Version")

[1] "1.8.4"

> version         _              

platform i386-pc-mingw32

arch     i386           

os       mingw32        

system   i386, mingw32  

status                  

major    2              

minor    1.0            

year     2005           

month    04             

day      18             

language R

 

I have the following exprs set: 166 probe sets in rows and 24 samples in columns. 

> dim(eset)

[1] 166  24

 

I have been generating the following heatmap:  

>a<-rownames(eset)

>c <- cor(eset, method="pearson")

>d <- as.dist(1-c)

>hc <- hclust(d, method="complete")

> heatmap(eset,Colv=as.dendrogram(hc),scale="row",

+ labRow=mget(a, get(paste("mouse4302", "SYMBOL", sep=""))),

+ labCol=sample.names,cexRow=0.6,xlab="Samples",ylab="Gene Symbol",col=cm.colors(256))

 

I would like to increase the row height for this plot so that when cexRow=0.6, the gene symbols will comfortably fit within a single row.  As it is now, the symbols overlap.  When cexRow=0.1, the gene symbols will fit within their row but are too small to read and don't save well.  All of this is
not a problem of course when using for example a smaller number of probe sets from eset.  However, I really would like to create a legible plot with all 166 probe sets.  Could anyone help me with what parameters I need to change?

 

Thanks,    

 

 

Scott A. Ochsner, Ph.D.

Baylor College of Medicine

One Baylor Plaza, N810

Houston, TX. 77030

lab phone:  713-798-1620

office phone:  713-798-1585

fax:  713-798-4161

 


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