Background: Hospitals have been identified as very high-risk places for Covid-19 transmission between health workers and non-covid-19 patients. Health care workers are the most at risk population to contract and transmit the infection especially to the already vulnerable non-Covid-19 patients. In Low-income countries, routine testing is not feasible due to the high cost of testing and the high turn around of results therefore presenting the risk of un-controlled transmission within the non Covid-19 treatment wards. This challenge necessitated the development of an affordable intermediary screening tool that would enable early identification of potentially infected health care workers and for early real time DNA-PCR testing prioritization. This would limit the contact time of potentially infected health care workers with the patients but also efficiently utilize the limited testing kits.Materials and Methods: Using the WHO, Ministry of Health of Uganda guidelines on the case definition of Covid-19, we developed a screening questionnaire tool for risk assessment of Covid-19. Specific signs and symptoms were weighted based on how prevalent they were among Covid-19 patients and subsequently an algorithm developed for the various case scenarios of Covid-19. Risk sores were computed based on the symptoms and contact history and a daily risk category assigned based on the risk score. The questionnaire, flow charts and algorithms were then integrated into an android mobile application. Following the launch, Health care workers would submit their daily risk scores and high-risk staff would be selected for testing and further intervention including treatment.Results: The primary result of this research project was the development of a mobile based daily early warning system for in-hospital transmission of Covid-19.Conclusion: Mobile screening applications can offer an intermediate screening tool for prioritizing which health care workers should undergo routine DNA-PCR for Covid-19 in health care systems where DNA-PCR testing of all health care workers is not feasible.Funding Statement: Funding support was obtained from the Makerere University Research Innovation Fund (MakRIF).Declaration of Interests: The authors declare that they have no competing interests.Ethics Approval Statement: Ethical clearance was obtained from the Research and Ethics Committee of Mulago Hospital protocol number MHREC 1901.