Hello,

I'm trying to make a plot with two visible separated groups of genes. I have data frame: colums:

gene:ID   A   B   C   D   E   F

where a-f are intensities of expression.

Heatmap shows nice difference between a-c and d-f expression, now I'd like to visualie this by scatterplot3d or cloud3d?

Could you give me some hints?

Regards,

Adam

Not sure of what your data looks like, and how you're analyzing it, but the plotPCA() function from the affycoretools R package may allow you to do that. You can also produce a 3d plot with this function.