Installation

System requirements

Web application for spatial registration of histological section images from rodent brains to reference 3D atlases. Any web browser can be used.

Conditions of use

Licence:

Source code: MIT License.

Citation of the tool:

-RRID on SciCrunch: (WebAlign, RRID:SCR_026758)

  • Puchades M, Yates SC, Csucs G, Carey H, Balkir A, Leergaard T, Bjaalie JG.

    Software and pipelines for registration and analyses of rodent brain image data in reference atlas space. Frontiers of Neuroinformations. 2025. https://doi.org/10.3389/fninf.2025.1629388

Access

WebAlign can be accessed through our integrated workflows with an EBRAINs account:

  1. The QUINT online workflow, accessible here: https://quint-online.apps.ebrains.eu/, more information about the QUINT online workflow can be found here: https://quint-webtools.readthedocs.io/en/latest/index.html

  2. The LocaliView workflow: https://localiview.apps.ebrains.eu/, more information about the QUINT online workflow can be found here: https://localiview.readthedocs.io/en/latest/Introduction.html