One quantitative liquid handling method in conventional assay processes is pipetting, which delivers a precise volume of one sample at a time. As this process becomes laborious and time-consuming as the number of samples increases, researchers in individual laboratories need a way to conduct large-scale assays in a reasonable amount of time and at an affordable cost. Here we report a novel handling technique of chemical substances termed 'partipetting', which allows the one-step pipetting of various chemical-laden hydrogels. We pipette and assemble various types of encoded chemical-laden microparticles in microwell arrays in parallel. The combination of this heterogeneous particle chip and a cell chip induces the release of the chemicals from the hydrogels and, eventually, the chemicals treat the targets. Based on bioassay applications using partipetting, we show its capability in large-scale bioassays, without the need for high-throughput bioassay resources, owing to a reduction in the assay costs and time.