Mikhail, Amy <a.mikhail at="" ...=""> writes: > name is plsgenomics - you can download it from CRAN and it will take your data as is (experiments in columns, > genes in rows). > > Also there is a nice paper by Mevik and Wehrens (2007) with examples for the pls package (also in CRAN) which I > found to be very useful for explaining how it works and how to do pls analyses generally. You can find it here: > > http://www.jstatsoft.org/v18/i02/paper > > Hope this helps, > > Best wishes, > Amy Hi Amy, Many thanks for that reference, I will be looking into all of if this week, also the limma package references by James and Otto seem to have possibilities, though the time course example in the Limma instructions is somewhat limited with only three stages, whereas I am looking at a range of 96 phenotypic data points. Best wishes, Martin