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| Automated parcellation of cerebral cortex into specific neuroanatomical regions of interest. | = Cortical Parcellation = The FreeSurfer utilities '''mris_ca_train''' and '''mris_ca_label''' together implement a technique for automatically assigning a neuroanatomical label to each location on a cortical surface model based on probabilistic information estimated from a manually labeled training set (made using FreeSurfer). This procedure incorporates both geometric information derived from the cortical model, and neuroanatomical convention, as found in the training set. The result is a complete labeling of cortical sulci and gyri. attachment:annot-sm.jpg |
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| <add link to fischl paper> | * [https://surfer.nmr.mgh.harvard.edu/ftp/articles/fischl04-parcellation.pdf Automatically Parcellating the Human Cerebral Cortex], Fischl et al., (2004). Cerebral Cortex, 14:11-22. |
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| <add link to desikan paper> | * <add link to desikan paper> |
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| == Binaries == | == Utilities == |
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| [wiki:Self:mris_ca_train mris_ca_train] | * ["mris_sample_parc"] - samples a volumetric parcellation onto a surface |
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| [wiki:Self:mris_ca_label mris_ca_label] | * ["mris_ca_train"] - creates the reference atlas * ["mris_ca_label"] - parcellates a cortical surface based on the reference atlas |
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| * What if I have a labeled volume? | * What if I have a labeled volume? How can I use it to create a labeled surface? |
[wiki:FreeSurferWiki top]
Cortical Parcellation
The FreeSurfer utilities mris_ca_train and mris_ca_label together implement a technique for automatically assigning a neuroanatomical label to each location on a cortical surface model based on probabilistic information estimated from a manually labeled training set (made using FreeSurfer). This procedure incorporates both geometric information derived from the cortical model, and neuroanatomical convention, as found in the training set. The result is a complete labeling of cortical sulci and gyri.
attachment:annot-sm.jpg
Background
[https://surfer.nmr.mgh.harvard.edu/ftp/articles/fischl04-parcellation.pdf Automatically Parcellating the Human Cerebral Cortex], Fischl et al., (2004). Cerebral Cortex, 14:11-22.
<add link to desikan paper>
Utilities
- ["mris_sample_parc"] - samples a volumetric parcellation onto a surface
- ["mris_ca_train"] - creates the reference atlas
- ["mris_ca_label"] - parcellates a cortical surface based on the reference atlas
Atlas
discuss default atlas, discuss creation of own atlas
FAQ
- What if I have a labeled volume? How can I use it to create a labeled surface?