Halo friends,

I have to do PCA analysis. I have 17 different samples (columns) and 730 genes for each samples (rows). I want to find how different they are from one another depending on the expression of all these genes.

I would like to know the code in R and which package should i use for this.

How can i compare more than two samples using only first two Principle Components??

Kindly let me know.

thank you,

It looks like you might benefit from some general introductory materials to PCA, and for that you might try reading through some of the materials made available on the factominer website:

http://factominer.free.fr/