This is where the Morphologist pipeline componets are.
The development of this pipeline aimed first at improving the robustness of the older (2007, 2004) ones, second at adding some features like providing a spherical mesh of the external interface of the cortex. Up to now, we mainly focused on robustness. We gathered 100 scans from all over the world, usually chosen for their poor quality in terms of contrast, signal to noise and spatial inhomogeneities. The challenge is to get good results for most of them. This means each time we modify something (tuning parameters or changing algorithms), the pipeline is iteratively triggered from the beginning for the 100 scans and the results are visually checked.