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<<FslToolContents>>
= 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.

{{{#!wiki caution
'''BETA RELEASE'''

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 [2], will be supported in an upcoming release.
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= Referencing =

If you use MIST in your research, please cite:
{{{#!wiki references
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:
{{{#!wiki references
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.
}}}