Objective Deep learning has been used to detect chronic kidney disease (CKD) from retinal fundus photographs. We aim to evaluate the performance of deep learning for CKD detection. Methods The original studies in CKD patients detected by deep learning from retinal fundus photographs were eligible for inclusion. PubMed, Embase, the Cochrane Library, and Web of Science were searched up to October 31, 2022. The Quality Assessment of Diagnostic Accuracy Studies-2 (QUADAS-2) tool was used to assess the risk of bias. Results Four studies enrolled 114,860 subjects were included. The pooled sensitivity and specificity were 87.8% (95% confidence interval (CI): 61.6% to 98.3%), and 62.4% (95% CI: 44.9% to 78.7%). The area under the curve (AUC) was 0.864 (95%CI: 0.769, 0.986). Conclusion Deep learning based on retinal fundus photographs has the ability to detect CKD, but it currently has a lot of room for improvement. It is still a long way from clinical application.