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VoluBA - Alignment of high-resolution volumes of interest

A browser-based tool for interactive alignment of volumes of interest from brain imaging experiments with a high-resolution 3D reference brain model.

  • Spatially align your volume of interest to the BigBrain space in a web browser.
  • Adjust position, scale, orientation and 3D landmark pairs interactively while appreciating the full resolution of the data.
  • See the aligned volume in combination with brain maps in the EBRAINS Interactive Atlas Viewer.
  • Store or share the parameters and resulting transformations, or submit your aligned data to EBRAINS curation services.

Using VoluBA, you can upload an image file to a private storage space and register it interactively to the reference space in your web browser. Currently, VoluBA supports the BigBrain model as a reference space. VoluBA is compatible with the EBRAINS 3D Interactive Atlas Viewer, so you directly inspect your aligned data superimposed with brain region maps and other datasets. You can also submit your anchored dataset to EBRAINS curation support for sharing.

Anchoring partial volumes to a high-resolution reference model

Anchoring an image volume to the reference volume in VoluBA consists of 1) uploading data, 2) adjusting coordinate axes orientations and scalings, 3) interactive adjustment of translation and rotation, and 4) optional refinement of the transformation by entering additional corresponding pairs of anatomical landmarks.


Data upload supports NIfTI files, and requires you to authenticate with an ORCID or EBRAINS account to provide a private storage space. All but the data upload steps can be performed and repeated in arbitrary order, and are supported through a history browser which allows to undo actions and roll back to any previous status of alignment. The interface can be switched to either show the two datasets in a superimposed view, or side-by-side, which is usually preferred for entering corresponding landmarks. After performing the anchoring, the aligned data can be directly opened as a semitransparent layer in the EBRAINS Interactive Atlas Viewer to compare it with region maps and image data. The transformation parameters can be downloaded as a json file. Finally, the aligned data can be submitted to EBRAINS curation services to be shared in line with the FAIR guiding principles.

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