Ventricular morphometry analysis system (VMAS) can generate a whole connected 3D brain ventricular shape model and encode a great deal of ventricular shape information that is inaccessible by ventricle volume measure. It is accessible here: http://gsl.lab.asu.edu/software/ventricl...
VMAS contains an automated segmentation approach and surface-based multivariate morphometry statistics. The whole pipeline is special for server mode. That means you can parallel deal with individual MRIs. The terminate results of "VMAS/run.py" are smoothed bilateral ventricles and can be used to do group-wise morphometry analysis as hippocampus pipeline (http://gsl.lab.asu.edu/software/mtbm-sma...), directional analysis and effect size analysis.