The estimation of human femur morphology and angulation provide useful information for assisted surgery, follow-up evaluation and prosthesis design, cerebral palsy management, congenital dislocation of the hip and fractures of the femur. Conventional methods that estimate femoral neck anteversion employ planar projections because accurate 3D estimations require complex reconstruction routines. In a recent work, we proposed a cylinder fitting method to estimate bifurcation angles in coronary arteries and we thought to test it in the estimation of femoral neck anteversion, valgus and shaft-neck angles. Femora from 10 patients were scanned using multisliced computed tomography. Virtual cylinders were fitted to 3 regions of the bone painted by the user to automatically estimate the femoral angles. Comparisons were made with a conventional manual method. Inter- and intra-reading measurements were evaluated for each method. We found femoral angles from both methods strongly correlated. Average anteversion, neck-shaft and valgus angles were 17.5°, 139.5°, 99.1°, respectively. The repeatability and reproducibility of the automated method showed a 5-fold reduction in inter- and intra-reading variability. Accordingly, the coefficients of variation for the manual method were below 25% whereas for the automated method were below 6%. The valgus angle assessment was globally the most accurate with differences below 1°. Maximum distances from true surface bone points and fitting cylinders attained 6 mm. The employment of virtual cylinders fitted to different regions of human femora consistently helped to assess true 3D angulations.