This repository contains a number of useful parcellations, templates, masks, and transforms to (and from) MNI152NLin6 space. The files are named according to the BIDs specification
| Atlas Name | # Regions | Symmetrical? | Hierarchical? | Labelled? | Generation Method | Average Vol/Region | Native coordinate space | Description | Reference Publication | Year of Origin | File Source/Download URL |
|---|---|---|---|---|---|---|---|---|---|---|---|
| AAL | 116 | No | No | Yes | Delineated with respect to anatomical landmarks (following sulci course in brain) | 12758.353 | MNI | Automated anatomical labelling based on sulci. | https://www.ncbi.nlm.nih.gov/pubmed/11771995 | 2002 | https://www.gin.cnrs.fr/en/tools/aal/ http://www.gin.cnrs.fr/wp-content/uploads/aal2_for_SPM12.tar.gz |
| AICHA | 384 | No | No | Yes | Built by estimation of resting-state networks, k-means clustering, homotopic regional grouping based on maximal inter-hemispheric functional correlation, and ROI labeling. | 3004.333 | N/A | Adaptation of AAL focused on the idea that each region in one hemisphere has a homologue in the other hemisphere | https://www.ncbi.nlm.nih.gov/pubmed/26213217 | 2015 | Included in mricron: https://people.cas.sc.edu/rorden/mricron/index.html |
| Brodmann | 40 | Yes | Yes | No | Corticall parcellation separating regions based on cellular morphology and organization | 32978.512 | N/A | Brodman areas separated by gyri | http://digital.zbmed.de/zbmed/id/554966 | 1909 | https://surfer.nmr.mgh.harvard.edu/fswiki/BrodmannAreaMaps |
| CAPRSC | 333 | Yes | No | Yes | Automatic using resting-state functional connectivity (RSFC) boundary maps | 1389.09 | N/A | Created using RSFC-boundary maps to define parcels that represent putative cortical areas. Focuses on the cortical surface and was created using functional MRI scans. | https://www.ncbi.nlm.nih.gov/pubmed/25316338 | 2016 | Obtained from Freesurfer: https://sites.wustl.edu/petersenschlaggarlab/parcels-19cwpgu/ |
| CPAC200 | 200 | No | No | No | Created by parcellating whole brain resting-state fMRI data into spatially coherent regions of homogeneous functional connectivity. | 5860.755 | N/A | ROIs with anatomic homology | https://pubmed.ncbi.nlm.nih.gov/21769991/ | 2018 | https://fcp-indi.s3.amazonaws.com/data/Projects/ABIDE_Initiative/Resources/cc200_roi_atlas.nii.gz |
| Desikan | 70 | Yes | No | No | Anatomical Landmarks based on gyri. Averaged based on majority voting | 24786.857 | N/A | Surface parcellation | https://www.sciencedirect.com/science/article/pii/S1053811906000437?via%3Dihub | 2006 | Obtained from FreeSurfer: https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation |
| DesikanKlein | 97 | No | No | No | Automated labeling system that subdivided the human cerebral cortex into gyral based regions of interest. | 74443.62 | N/A | Gyral based parcellations | https://www.sciencedirect.com/science/article/pii/S1053811906000437?via%3Dihub | 2006 | Obtained from FreeSurfer: https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation |
| Destrieux | 75 | Yes | No | Yes | Automatically assigned a neuroanatomical label to each location on a cortical surface model based on probabilistic information estimated from a manually labeled training set. | 96280.43 | MNI152 | Cortical surface probabilitstic atlas | https://academic.oup.com/cercor/article/14/1/11/433466 | 2004 | Obtained from FreeSurfer: https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation |
| DKT | 84 | Yes | No | No | Automatic | 85964.66 | N/A | Created by using a modified Desikan protocol in order to improve segmentation and make it more suited for FreeSurfer’s classifier algorithm. | https://www.frontiersin.org/articles/10.3389/fnins.2012.00171/full | 2012 | Obtained from FreeSurfer: https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation |
| Glasser | 360 | Yes | Yes | Yes | Semi-automated. Separated based on function, connectivity, cortical architecture, topography, and expert analysis | 521.994 | MNI | Cortical parcellation from multi-modal images of 210 adults in HCP | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4990127/ | 2016 | https://balsa.wustl.edu/file/show/3VLx |
| Hammersmith | 83 | No | No | Yes | Algorithm using prior information from 30 normal adult brain MR images, which had been manually segmented to create 30 atlases, each labeling 83 anatomical structures. | 19947.72 | MNI152 | Automatic segmentation of young children's brains into 83 regions of interest. | https://www.sciencedirect.com/science/article/pii/S1053811907010634?via%3Dihub | 2003 | http://brain-development.org/brain-atlases/adult-brain-atlases/adult-brain-maximum-probability-map-hammers-mith-atlas-n30r83-in-mni-space/ |
| HarvardOxford | 48 | No | Yes | Yes | Created by subdividing neocortex by topographic criteria into 48 parcellation units corresponding to the principal cerebral gyri. | 21966.104 | N/A | Neuroanatomic subdivisions delineated by this general segmentation generaly corresponding to natural gray matter boundaries. | https://www.sciencedirect.com/science/article/pii/S0920996405004998?via%3Dihub | 2005 | Included in FSL: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Atlases |
| JHU | 48 | Yes | No | Yes | One subject manually labelled and warped to 29 other adult atlases (Large Deformation Diffeomorphic Metric Mapping) | 3541.792 | N/A | A small version of a larger (289 ROI) atlas composed based on parcellation of deep white matter. Split into 4 groups: Tracts in the brainstem, projection fibers, association fibers, and commisural fibers | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2724595/ | 2004 | https://neurovault.org/collections/264/ |
| Juelich | 103 | No | No | Yes | Probabilistic atlas created by averaging multi-subject post-mortem cyto- and myelo-architectonic segmentations. | 69433 | N/A | N/A | https://linkinghub.elsevier.com/retrieve/pii/S1053-8119(04)00792-X | 2005 | https://interactive-viewer.apps.hbp.eu/?templateSelected=MNI+Colin+27&parcellationSelected=JuBrain+Cytoarchitectonic+Atlas |
| MICCAI | 136 | No | No | No | N/A | 52708.26 | N/A | N/A | MICCAI 2012 Workshop: https://my.vanderbilt.edu/masi/workshops/ | 2012 | http://www.neuromorphometrics.com/2012_MICCAI_Challenge_Data.html |
| Princeton | 49 | Yes | Yes | Yes | Identified 25 topographic maps in a large population of individual subjects and transformed them into either surface- or volume-based standardized space. | 1217.388 | N/A | Atlas exclusively containing parcellations of the visual cortex. | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4585523/ | 2015 | https://scholar.princeton.edu/napl/resources |
| Schaefer1000 | 1000 | No | No | No | Automatic using gwMRF | 1055.685 | N/A | Gradient-weighted Markov Random Fields (gwMRF) to group similar fMRI regions (dependent on # of regions specified) | http://people.csail.mit.edu/ythomas/publications/2018LocalGlobal-CerebCor.pdf | 2017 | https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal https://minhaskamal.github.io/DownGit/#/home?url=https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations |
| Schaefer200 | 200 | No | No | No | Automatic using gwMRF | 5278.425 | N/A | Gradient-weighted Markov Random Fields (gwMRF) to group similar fMRI regions (dependent on # of regions specified) | http://people.csail.mit.edu/ythomas/publications/2018LocalGlobal-CerebCor.pdf | 2017 | https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal https://minhaskamal.github.io/DownGit/#/home?url=https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations |
| Schaefer300 | 300 | No | No | No | Automatic using gwMRF | 3518.95 | N/A | Gradient-weighted Markov Random Fields (gwMRF) to group similar fMRI regions (dependent on # of regions specified) | http://people.csail.mit.edu/ythomas/publications/2018LocalGlobal-CerebCor.pdf | 2017 | https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal https://minhaskamal.github.io/DownGit/#/home?url=https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations |
| Schaefer400 | 400 | No | No | No | Automatic using gwMRF | 2639.213 | N/A | Gradient-weighted Markov Random Fields (gwMRF) to group similar fMRI regions (dependent on # of regions specified) | http://people.csail.mit.edu/ythomas/publications/2018LocalGlobal-CerebCor.pdf | 2017 | https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal https://minhaskamal.github.io/DownGit/#/home?url=https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations |
| Slab1068 | 1068 | No | No | No | Calculated spatially averaged time series for each of 1068 regions of interest placed in a regular 12-mm grid throughout the brain | 493.719 | N/A | Grid of ROI points spanning entire MNI brain volume. | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5507181/ | 2017 | https://umich.app.box.com/s/w46icx4bng1mw1nc3sg72t13ug5ecyib https://www.nitrc.org/projects/kessler_jama16/ |
| Slab907 | 907 | No | No | No | Placed 907 ROIs at regular intervals throughout the cortex | 7952.68 | N/A | Grid of ROI points spanning entire MNI brain volume | https://pubmed.ncbi.nlm.nih.gov/25225387/ | 2014 | https://umich.app.box.com/s/jowv4pogzhbfevt301n8 |
| Talairach | 1105 | No | Yes | Yes | Semi-automated? | 1698.114 | Talairach coordinates | A hierarchical atlas split into 5 leves: Hemisphere, Lobe, Gyrus, Tissue Type, and Cell Type | https://www.ncbi.nlm.nih.gov/pubmed/7008525 | 1980 | http://www.talairach.org/ |
| Tissue | 3 | No | No | N/A | 609031.667 | N/A | (Tissue-based segmentation: WM, GM, CSF) | 2018 | |||
| Yeo 17 | 17 | Yes | No | Yes | Clustered to identify networks of functionally coupled regions | 31040.294 | FreeSurfer surface space | Local networks confined to sensory and motor cortices, functional connectivity followed topographic representations across adjacent areas | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174820/ | 2011 | https://ftp.nmr.mgh.harvard.edu/pub/data/Yeo_JNeurophysiol11_MNI152.zip http://www.freesurfer.net/fswiki/CorticalParcellation_Yeo2011 |
| Yeo 17 Liberal | 17 | Yes | No | Yes | Clustered to identify networks of functionally coupled regions | 62043.118 | FreeSurfer surface space | Local networks confined to sensory and motor cortices, functional connectivity followed topographic representations across adjacent areas | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174820/ | 2011 | https://ftp.nmr.mgh.harvard.edu/pub/data/Yeo_JNeurophysiol11_MNI152.zip http://www.freesurfer.net/fswiki/CorticalParcellation_Yeo2011 |
| Yeo 7 | 7 | Yes | No | Yes | Clustered to identify networks of functionally coupled regions | 75383.571 | FreeSurfer surface space | Local networks confined to sensory and motor cortices, functional connectivity followed topographic representations across adjacent areas | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174820/ | 2011 | https://ftp.nmr.mgh.harvard.edu/pub/data/Yeo_JNeurophysiol11_MNI152.zip http://www.freesurfer.net/fswiki/CorticalParcellation_Yeo2011 |
| Yeo 7 Liberal | 7 | Yes | No | Yes | Clustered to identify networks of functionally coupled regions | 150676.143 | FreeSurfer surface space | Local networks confined to sensory and motor cortices, functional connectivity followed topographic representations across adjacent areas | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174820/ | 2011 | https://ftp.nmr.mgh.harvard.edu/pub/data/Yeo_JNeurophysiol11_MNI152.zip http://www.freesurfer.net/fswiki/CorticalParcellation_Yeo2011 |
| DS Family | 71 - 72784 | No | No | No | Grid segmentation of entire MNI brain | Variable | N/A | Grid segmentation of entire MNI brain | https://ieeexplore.ieee.org/document/6736874 | 2013 | N/A |