Is there a simple way of classifying breast cancer subtype. Clustering will classify samples in terms of expression of set of genes. Then how one decide which type is this. I did my home work a lot but could not find a very straight forward answer. Any pointer may be helpful- publication/ guidelines how to classify
No, there is no simple way of classifying breast cancers by subtype.
There are a number of algorithms that have been developed, some of which have been implemented in R packages.
It isn't exactly my research topic, but I used to work with the developers of genefu.
It's just not a simple question.
I've had entire courses devoted to the question given by computational biologists who have spent their entire careers working on breast cancer classification.
If you're inclined to do so, you can try developing your own method, by following the tutorial posted on this website.