Simulated and phantom data were used to determine if factor analysis of dynamic structures (FADS) methods can be used quantitatively. FADS methods tested included variants of apex seeking, the intersection method, cluster analysis and spatial constraints. These were compared with a region-of-interest (ROI) approach. Simulated renal studies were prepared using from three to six homogeneous structures. These corresponded to two blood background structures; two structures (one pathological) for parenchyma; and two structures (one pathological) for the collecting system. Time-activity curves for background, parenchyma and collecting system were obtained for each method and compared with the true curve. A kidney phantom was modelled using a tunnelled vessel filled with chelating material A variable flow was controlled by a peristaltic pump representing the renal filtration of fluid. The glomerular filtration rate (GFR) was estimated using FADS and ROI-based methods and compared with the values measured experimentally. Most FADS methods perform well in the absence of pathology, but less well than the ROI-based method when pathology is present. Some FADS methods perform better than the ROI-based method when background estimation is a problem as in the GFR experiment. For quantitative analysis, the success of FADS depends on the validity of the underlying assumptions and on the appropriate nature of the constraints.