An apparatus for high-throughput screening and generation of chemical libraries. The apparatus comprises computer controlled mechanical displacement devices and storage queues capable of managing a large number of source well plates and target well plates. In one aspect of the invention, precession alignment mechanisms are provided for efficient transfer of liquid from source well plates to target well plates. The apparatus may be configured such that any source fluid in any of the source well plates may be transferred to any target location within any of the target well plates in any sequence defined by the user. The computer controller may track the location of all the source well plates and target well plates and allow user defined association of any source well with any target well in any order defined by the user, thus providing an effective platform for chemical and biochemical synthesis and screening.