BrainBrowser code status and visualization tools

Natacha Beck

Table of content

  • BrainBrowser
    • History
    • Official website
    • BigBrain Surface Viewer
    • BigBrain BrainBrowser
    • Our use
    • Know issues
    • Missing features
    • Github repository
  • Other visualization tools
    • Internal
    • External

BrainBrowser

History

  • 2010 to 2013: Nicolas Kassis
  • 2013 to 2015: Tarek Sherif
  • 2014 to 2015: Lindsay Lewis
  • 2015 to 2017: Robert D Vincent
  • 2015 to 2017: Natacha Beck
  • 2016 to 2018: Jonathan Lurie

Official website

Surface viewer

MACACC dataset viewer

Volume viewer

BigBrain Surface Viewer

BrainBrowser Surface Viewer

BrainBrowser Volume Viewer

Our use

  • CBRAIN
    • Civet Output
    • Surface viewer (.nii, .mnc, .mgh)
    • Overlay (experimental)
  • BigBrain
  • LORIS

Know issues (examples)

  • Version differ between website and GitHub repo
  • BigBrain BrainBrowser is not part of BrainBrowser
  • three.js version (use v69) actual v140 (May 2022)
  • Transparancy in Surface viewer (when removed some shape)

Missing features (examples)

  • Volume viewer
    • Missing interpolation (when zooming)
    • Cross become bigger (when zooming)
  • BigBrain Surface viewer
    • Zoom go slower when to deep
    • No way to unload vertex data or reload vertex data and others

GitHub repository

Other visualization tools

Internal tools

External tools



Visualisation tools comparaison (2018)

Thanks!