A Whole-Brain 3D Myeloarchitectonic Atlas: Mapping the Vogt-Vogt Legacy to the Cortical Surface

This repository contains a 3D MRI atlas containing detailed myeloarchitectural parcellations derived from Vogt & Vogt histological data. It is based on the popular MNI-Colin27 brain template and has been validated on in-vivo MRI data. As such, this atlas provides fine-grained cortical parcellations and is intended for use with both structural and functional imaging data and associated grey-level index maps provide information on myelin density per individual cortical field.

If you are implementing this atlas in your own research, please reference this publication:

Foit, N. A., Yung, S., Lee, H. M., Bernasconi, A., Bernasconi, N., & Hong, S. J. (2022). A Whole-Brain 3D Myeloarchitectonic Atlas: Mapping the Vogt-Vogt Legacy to the Cortical Surface. NeuroImage.

The atlas includes:

1. Vogt-Vogt annotation files in MNI space (*.annot) for both hemispheres for use with FreeSurfer
2. Grey-level index maps in Conte69 and Colin27 space (*.gii)
3. Volumetric atlas versions in MNI space in NifTi file-format for both hemispheres (vogt_multilabel_{rh,lh}.nii.gz) with correspoding label descriptions
4. The Colin27 brain template in NifTi format to facilitate registration purposes (colin27_T1.nii.gz)

Getting started

We provide code to apply the atlas to individual data which has been processed with FreeSurfer. Please note that subjects needs to be processed with the recon -all pipeline prior to atlas application.

Usage notes

The atlas can be applied to individual data through the FreeSurfer command line interface and is fully scriptable. Volumetric nifti-files are intended for use with imaging toolkits that do not use surface processing, e.g. SPM

How to get involved

If you've found a bug, are experiencing a problem, or have questions, create a new issue with some information about it! Furthermore, we would appreciate your feedback on how implementing this atlas has helped your project.

Need help or questions

If you have any questions or need help, feel free to email us at nfoit@bic.mni.mcgill.ca

Licence

The MNI myeloarchitectonic atlas is licensed under the BSD-3 license, while FreeSurfer environment uses a more restrictive framework. Details and usage notes can be found here: https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferSoftwareLicense. Further information on the MNI-Colin27 brain template is available from https://www.bic.mni.mcgill.ca/ServicesAtlases/Colin27