- User Guide
Multimodal segmentation of subcortical structures
MIST (Multimodal Image Segmentation Tool) is a flexible tool for subcortical segmentation. It differs from FIRST in that it can use complementary information in different MRI modalities and is less reliant on manual segmentations.
MIST is currently considered to be in testing, meaning that you will need to inspect its output a bit more carefully to see if you are happy with it. The current release segments a limited number of structures. The full set of structures that FIRST segments, as well as the brainstem nuclei described in , will be supported in an upcoming release.
If you use MIST in your research, please cite:
Visser E, Keuken MC, Douaud G, Gaura V, Bachoud-Levi AC, Remy P, Forstmann BU, Jenkinson M (2016). Automatic segmentation of the striatum and globus pallidus using MIST: Multimodal Image Segmentation Tool. NeuroImage 125:479-497.
Segmentation of the red nucleus, substantia nigra and subthalamic nucleus (to be included in an upcoming release) is described in:
Visser E, Keuken MC, Forstmann BU, Jenkinson M (2016). Automated segmentation of the substantia nigra, subthalamic nucleus and red nucleus in 7 T data at young and old age. NeuroImage 139:324-336.