Atlas tools¶
- Jülich probabilistic cytoarchitectonic maps (SPM Anatomy Toolbox)
- FreeSurfer cortical parcellations
- AFNI framework: 1 and 2
- WFU PickAtlas
- IBASPM
- Template-O-Matic Toolbox
- FSL atlasquery
- SPM12 spm_atlas.m
- multi-species Scalable Brain Atlas
- Online Brain Atlas Reconciliation Tool (OBART)
Sets of atlases¶
- Jülich probabilistic cytoarchitectonic maps (SPM Anatomy Toolbox)
- Atlases available from FSL, see also MGH CMA Harvard-Oxford Atlases
- Yeo's connectivity-based parcellation (cortical and MNI volumetric)
- LONI Atlases
- ICBM Atlases (original)
- ICBM Atlases (2009)
- Brain Development Atlases
- Mindboggle
- Allen Brain Atlas, (see also 1 and 2)
- IIT Human Brain Atlas
Atlases with whole-brain coverage¶
- Talairach Daemon
- AAL Anatomical Automatic Labeling
- AAL2 New parcellation of the orbitofrontal cortex in AAL
- LONI Probabilistic Brain Atlas (LPBA40) (56 structures)
- SRI24 Atlas (group-wise average atlas with two parcellations based on AAL and LPBA40)
- "Hammers-mith atlas"; n30r83, see 1 & 2
- Brainvisa Sulci atlas
- ICBM 152 Nonlinear atlases version 2009 (some variants with lobar parcellations)
- Group-level functional parcels
- Stanford atlas of functional ROIs
- Atlas of frequency of vascularization
- Innovation-driven co-activation patterns (iCAPs) from resting-state fMRI
- AICHA: atlas of intrinsic connectivity of homotopic areas
Whole-brain atlases for specific populations¶
Whole-brain white-matter tract / diffusion-imaging atlases¶
- JHMI Human White Matter Probabilistic Atlases
- SRI24 Atlas (basic diffusion metrics)
Whole-brain tissue-class atlases¶
- BrainWeb (One subject with 9 non-background tissue classes; 20 subjects with 11)
- ICBM 152 Nonlinear atlases version 2009 (Group-wise average atlas variants with GM, WM and CSF classes)
- LPBA40 (Group-wise average atlas with GM, WM and CSF classes)
- SRI24 Atlas (Group-wise average atlas with GM, WM and CSF classes)
Atlases for specific regions¶
- Probabilistic atlas of the human cerebellum
- Connectivity-based cerebellar parcellation (see also this)
- Subthalamic nucleus atlas (see also 4)
- Hippocampal subfield atlases
- Connectivity-based parcellation atlases
- ChroMa cerebellum atlas
- Probabilistic maps of visual topography in human visual cortex
- Human Motor Area Template (HMAT), Basal Ganglia Human Area Template (BGHAT), Sensorimotor Area Tract Template (S-MATT), Transcallosal Tractography Template (TCATT)
Labelled individual images¶
- MICCAI 2013 Challenge Workshop on Segmentation: Algorithms, Theory and Applications ("SATA") (47 mid-brain, 45 canine leg, and 155 cardiac datasets)
- MICCAI 2012 Multi-Atlas Labeling Workshop and Challenge (30 subjects, 134 consistent labels, provided by Neuromorphometrics -- see below)
- Neuromorphometrics (Currently 63 subjects with 157 regions, but available only with paid subscription, see also NITRC project page)
- Mindboggle (101 subjects, 31 cortical regions per hemisphere, no subcortical structures)
- LPBA40 (40 subjects, 56 regions)
- NIREP NA0 (16 subjects, 32 gray matter regions)
- Internet Brain Segmentation Repository (IBSR) (version 2 has 18 subjects with 34 regions)
- Arno Klein's registration evaluation data (Klein et al., 2009) (includes CUMC12 and MGH10)
- Hammers' Individual Adult Brain Atlases (20 subjects, 67 regions)
- Child and Adolescent NeuroDevelopment Initiative (CANDI) (103 subjects with CMA segmentations)