Waxholm Space Atlas of the Sprague Dawley Rat Brain
The atlas delineations and the MRI/DTI reference data are shared along with labels and configuration files for ITK-SNAP, the Mouse BIRN Atlasing Toolkit, and PMOD. The latest atlas version contains 222 structures. For more information, see MediaWiki.
The atlas has been adopted as the standard rat brain atlas for the EBRAINS infrastructure, see https://ebrains.eu/service/rat-brain-atl...
The atlas is shared under the CC BY 4.0 licence, see Citation for instructions on how to cite.
Execution Options
Specifications
Associations
ITK-SNAP
MeshGen - Surface meshes from volumetric segmentation data
MouseBIRN Atlasing Toolkit (MBAT)
QuickNII - Serial section aligner to volumetric atlases
VisuAlign - Nonlinear adjustments after QuickNII
MeshView for brain atlases
QCAlign - quality control for the QUINT workflow
Recent Activity - Documents
WHS SD rat brain atlas v4.01 change log posted by Heidi Kleven on Apr 20
Note on the WHSSDr v1.01 coordinate system posted by Heidi Kleven on Apr 20
WHS SD rat brain atlas change log posted by Heidi Kleven on Jan 12
Recent Activity - Forums
RE: Brain atlas with just the outline posted by Gergely Csucs on Oct 13
Brain atlas with just the outline posted by Api Ala on Oct 12
RE: 3D coordinates for VR model posted by Luis Schettino on May 3
RE: 3D coordinates for VR model posted by Gergely Csucs on May 3
RE: 3D coordinates for VR model posted by Luis Schettino on May 2
RE: 3D coordinates for VR model posted by Gergely Csucs on May 1
3D coordinates for VR model posted by Luis Schettino on Apr 29
RE: mask files of each anatomical structure posted by Eszter Agnes Papp on Sep 13, 2022
RE: mask files of each anatomical structure posted by ymmpi on Sep 13, 2022
RE: mask files of each anatomical structure posted by Eszter Agnes Papp on Sep 13, 2022
Recent Activity - Files
WHS_SD_rat_atlas_v4.01_PMOD.zip posted by Eszter Agnes Papp on Apr 20
MBAT_WHS_SD_rat_atlas_v4.01.zip posted by Eszter Agnes Papp on Apr 20
WHS_SD_rat_atlas_v4.01.label posted by Eszter Agnes Papp on Apr 20
WHS_SD_rat_atlas_v4.01.nii.gz posted by Eszter Agnes Papp on Apr 20
WHS_SD_rat_atlas_v4_PMOD.zip posted by Eszter Agnes Papp on Oct 1, 2021
WHS_SD_rat_atlas_v3.01_PMOD.zip posted by Eszter Agnes Papp on Oct 1, 2021
Ready-to-use packages: Bundle release
WHS_SD_rat_atlas_v4_pack.zip posted by Eszter Agnes Papp on Oct 1, 2021
Ready-to-use packages: Bundle release
MBAT_WHS_SD_rat_atlas_v4_pack.zip posted by Eszter Agnes Papp on Oct 1, 2021
MBAT_WHS_SD_rat_atlas_v4.zip posted by Eszter Agnes Papp on Oct 1, 2021
WHS_SD_rat_atlas_v4.label posted by Eszter Agnes Papp on Oct 1, 2021