iMSRC is a novel piece of software that enables the upgrading of a conventional automated microscope to an intelligent screening platform. This saves time and resources, improves data robustness and makes possible new applications such as rare event detection. iMSRC combines the advantages of proprietary and custom-made acquisition software, showing flexibility and straightforward operation. A single workstation running iMSRC is capable of controlling several microscopes, ensuring stability and simplifying equipment management.