>Does anybody know any alternative ways to be able to call R from Java? JRI http://rosuda.org/JRI/ now contained in rJava http://www.rforge.net/rJava/ and new is this one which I think provides something on top of rJava maybe Rserve: http://www.ebi.ac.uk/microarray-srv/frontendapp/BIOCEP_README.txt best wishes ido